CmaCh17G013900 (gene) Cucurbita maxima (Rimu) v1.1

Overview
NameCmaCh17G013900
Typegene
OrganismCucurbita maxima (Cucurbita maxima (Rimu) v1.1)
DescriptionU2 small nuclear ribonucleoprotein A'-like
LocationCma_Chr17: 9260519 .. 9262800 (+)
RNA-Seq ExpressionCmaCh17G013900
SyntenyCmaCh17G013900
Sequences
The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonfive_prime_UTRCDSpolypeptidethree_prime_UTR
Hold the cursor over a type above to highlight its positions in the sequence below.
TGAAAGTCCATTAAGAGGGGGTTGGTCCGGTTCGAAATGTGGACGTCTCGTGTTCCGATCCACGCAGCGCTGCTTGCTGTCGTTTGTCGTCGCGCCCTAAACCCTTTAACCCCGAAACCCCATCGTCGTCCAGTGAATTCAAGTCAGAAGAACATGGTGAGACCCAGAGTGGATTTAATCTGGAAAAGCCCTCATTTCTTCAATGCCATTAAGGAGCGAGAACTGGACCTTCGAGGTTGTCTATCTTTTCTCAACTCGGTACTTTTTTCACCCTCTTGGGCGCGCATTTGTTAACTCATTTCTTCTCGTCTCCAGGAAACAAGATAGCAGTGATTGAAAACCTGGGTGCCACCGAGGTGAGCCATTTCCACCGCCTTCTATCTCTTGTTTACCTGCCTATGATGTATCCATAACTTGGCCATACCATTTCTCCTCTTGGGTTAGTTTTGTTGTTGTCTGAAATTTGAATTATGTTCTTACCCGCCTGTAAGCTGCATACATCCTTATCGGCTGGTGACGTATTTAAATTCACTTCAGACTTATCAAAGGATTACCCACATCACTTACCTTCCCATATGAGCAGAACACAACTTGGAAGAACTAGAGTTGAGCGTGAATTAACCGGCCCATGGGAGAAGAGGCCATTTGAATCTAGTTTCCAATATCCTTATCAATGCCTAGCTTTACCAAATTGAGCTTAAGAGAAGAAAGGATCCCTTCTTTAATTTTCTATCACTTTGTTTCCTTCTCAAGCCTACATCCCATAGACTCCTTTCTGTGAGTGCTCCTTCAGTTTTTGGAACAGCATTATTTTCAAAAGAAACAGAAGTTGCTAGTACCCAACCAACCATCTTCCAAAAATAATTATTTTCAGTACAAATTTGCTAACGGGCCTTTGGTTTTGATAACTAAAATTACCTTCATGACCATCCATCACCACCGCTAAAACAGCTCAAGTTCACCGTTAGCATATATTGTCCTATTTAGGCTTTCTCTTCAAGGTTTTAAAATGTGTCTACTAGGAAGAGGTTTTCACACTCTTGTAAGGAATGCTTCGTTCCCCTCTCCAACCAATATGGAATCTCATGGCACACCACTCGATGACTGGTTCTGATACCAATTATAACCGTCCAAGTCCACCACTAGCAGATAATGTCTTCTTTGGGCTTTCCCTTCTGAGCTTTCCTTCAAGGTTTTAAAACGTGTTTGTTAGGTAGAGGTTTTACTTTGTTTCTTTCTCCAACTGATATGGGATCTCACAACCACCTCCTACATTTGTGAGCCACCTGATCGGATAAGAAGCATATTTACACTATAAAACTTTTCACCAAGGTCCTCAAGAAAGTACCTAAATGGTCACTGTATCATTGAGGGTTCTTTCTTGTATCTGAGGTATCTCTTGTCCAATCCACCTAAAGAAATAGGGACTCAAGGATGGCAGCCTACTTTCACTTGACTGAGTGACAACCTTAATCCAAGTTTTCTAAATGGAATCCTCATTCTTATGTGTTGAGCTTCTAGGGTTGATTTCTTGTTACTCAGGTGGAATAAAGTTTCGTCTTCTTTTGACAAAGAGTACCCAAGGTCAAGCGGGTTGTCTCGTAAAATTAGTTGACGTGCGTGCAAGCTGGTCTGAACATTCACGGATATAAAAATAAGGACAAAGAATACCCCTAATCTCGTTTTAAAATGGACAAAATACACCAGGAAGGTGGCACCAACAAATATTGGGTTTAAACTTCTTTGACTTGAAAGTGCTATTTCATCTGAAATCATAAGCTTCCCCTTCCTTTGCTGTTTGTTCGAGGACATGTTTTTCCTTTATCTTTTAGGCATATGACGGTGCATTTTGCTTGACCAGGACCAATTTGATGGCATTGATTTGTGTGATAATGAGATTGTGAAGCTGGAAATTGGAAAATATGCATTATCTTAATCGATTGGGACCTATTTGATAATCATTTCAAGATTATGTCTTTGTTGCTGTCAGAGTTGTTGCCAAAATTACACACACACTAGTTGTTACGAGCAACAGAGTTGTGAAGTTGGTAGAGATAGAGGCGTTGGCATCCCTTCCAAAACTACAGTTTCTTAGTTTGTTGGATAACAATATTAGGAAGAAGCCAAACTATAGATTGTATGTCATTCACAAGTTGAAGTCAGTGGGGAGCAAATTATAATTCTATACTTACTGTATGAAGTGAAGTTAGTATTTTATTAACAAATGAACAATACAAATTCAAGAAATTAAATCAAATAATCTATTTCAGGGGCTTCTAAGA

mRNA sequence

TGAAAGTCCATTAAGAGGGGGTTGGTCCGGTTCGAAATGTGGACGTCTCGTGTTCCGATCCACGCAGCGCTGCTTGCTGTCGTTTGTCGTCGCGCCCTAAACCCTTTAACCCCGAAACCCCATCGTCGTCCAGTGAATTCAAGTCAGAAGAACATGGTGAGACCCAGAGTGGATTTAATCTGGAAAAGCCCTCATTTCTTCAATGCCATTAAGGAGCGAGAACTGGACCTTCGAGGAAACAAGATAGCAGTGATTGAAAACCTGGGTGCCACCGAGGTGAGCCATTTCCACCGCCTTCTATCTCTTGTTTACCTGCCTATGATGTATCCATAACTTGGCCATACCATTTCTCCTCTTGGGACCAATTTGATGGCATTGATTTGTGTGATAATGAGATTGTGAAGCTGGAAATTGGAAAATATGCATTATCTTAATCGATTGGGACCTATTTGATAATCATTTCAAGATTATGTCTTTGTTGCTGTCAGAGTTGTTGCCAAAATTACACACACACTAGTTGTTACGAGCAACAGAGTTGTGAAGTTGGTAGAGATAGAGGCGTTGGCATCCCTTCCAAAACTACAGTTTCTTAGTTTGTTGGATAACAATATTAGGAAGAAGCCAAACTATAGATTGTATGTCATTCACAAGTTGAAGTCAGTGGGGAGCAAATTATAATTCTATACTTACTGTATGAAGTGAAGTTAGTATTTTATTAACAAATGAACAATACAAATTCAAGAAATTAAATCAAATAATCTATTTCAGGGGCTTCTAAGA

Coding sequence (CDS)

ATGTGGACGTCTCGTGTTCCGATCCACGCAGCGCTGCTTGCTGTCGTTTGTCGTCGCGCCCTAAACCCTTTAACCCCGAAACCCCATCGTCGTCCAGTGAATTCAAGTCAGAAGAACATGGTGAGACCCAGAGTGGATTTAATCTGGAAAAGCCCTCATTTCTTCAATGCCATTAAGGAGCGAGAACTGGACCTTCGAGGAAACAAGATAGCAGTGATTGAAAACCTGGGTGCCACCGAGGTGAGCCATTTCCACCGCCTTCTATCTCTTGTTTACCTGCCTATGATGTATCCATAA

Protein sequence

MWTSRVPIHAALLAVVCRRALNPLTPKPHRRPVNSSQKNMVRPRVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATEVSHFHRLLSLVYLPMMYP
Homology
BLAST of CmaCh17G013900 vs. ExPASy Swiss-Prot
Match: P43333 (U2 small nuclear ribonucleoprotein A' OS=Arabidopsis thaliana OX=3702 GN=At1g09760 PE=2 SV=2)

HSP 1 Score: 77.0 bits (188), Expect = 1.3e-13
Identity = 36/41 (87.80%), Postives = 37/41 (90.24%), Query Frame = 0

Query: 40 MVRPRVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATE 81
          MV+   DLIWKSPHFFNAIKERELDLRGNKI VIENLGATE
Sbjct: 1  MVKLTADLIWKSPHFFNAIKERELDLRGNKIPVIENLGATE 41

BLAST of CmaCh17G013900 vs. ExPASy Swiss-Prot
Match: P09661 (U2 small nuclear ribonucleoprotein A' OS=Homo sapiens OX=9606 GN=SNRPA1 PE=1 SV=2)

HSP 1 Score: 49.3 bits (116), Expect = 2.9e-05
Identity = 23/40 (57.50%), Postives = 31/40 (77.50%), Query Frame = 0

Query: 40 MVRPRVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGAT 80
          MV+   +LI ++  + NA+++RELDLRG KI VIENLGAT
Sbjct: 1  MVKLTAELIEQAAQYTNAVRDRELDLRGYKIPVIENLGAT 40

BLAST of CmaCh17G013900 vs. ExPASy Swiss-Prot
Match: Q4R8Y8 (U2 small nuclear ribonucleoprotein A' OS=Macaca fascicularis OX=9541 GN=SNRPA1 PE=2 SV=1)

HSP 1 Score: 49.3 bits (116), Expect = 2.9e-05
Identity = 23/40 (57.50%), Postives = 31/40 (77.50%), Query Frame = 0

Query: 40 MVRPRVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGAT 80
          MV+   +LI ++  + NA+++RELDLRG KI VIENLGAT
Sbjct: 1  MVKLTAELIEQAAQYTNAVRDRELDLRGYKIPVIENLGAT 40

BLAST of CmaCh17G013900 vs. ExPASy Swiss-Prot
Match: P57784 (U2 small nuclear ribonucleoprotein A' OS=Mus musculus OX=10090 GN=Snrpa1 PE=1 SV=2)

HSP 1 Score: 49.3 bits (116), Expect = 2.9e-05
Identity = 23/40 (57.50%), Postives = 31/40 (77.50%), Query Frame = 0

Query: 40 MVRPRVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGAT 80
          MV+   +LI ++  + NA+++RELDLRG KI VIENLGAT
Sbjct: 1  MVKLTAELIEQAAQYTNAVRDRELDLRGYKIPVIENLGAT 40

BLAST of CmaCh17G013900 vs. ExPASy Swiss-Prot
Match: Q9BLB6 (Probable U2 small nuclear ribonucleoprotein A' OS=Caenorhabditis elegans OX=6239 GN=mog-2 PE=1 SV=1)

HSP 1 Score: 45.1 bits (105), Expect = 5.5e-04
Identity = 20/40 (50.00%), Postives = 27/40 (67.50%), Query Frame = 0

Query: 40 MVRPRVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGAT 80
          MVR   +L  + P F N++  RE++LRG KI VIEN+G T
Sbjct: 1  MVRLTTELFAERPQFVNSVNMREINLRGQKIPVIENMGVT 40

BLAST of CmaCh17G013900 vs. ExPASy TrEMBL
Match: A0A6J1JRX0 (U2 small nuclear ribonucleoprotein A'-like OS=Cucurbita maxima OX=3661 GN=LOC111488368 PE=3 SV=1)

HSP 1 Score: 166.8 bits (421), Expect = 4.6e-38
Identity = 80/80 (100.00%), Postives = 80/80 (100.00%), Query Frame = 0

Query: 1  MWTSRVPIHAALLAVVCRRALNPLTPKPHRRPVNSSQKNMVRPRVDLIWKSPHFFNAIKE 60
          MWTSRVPIHAALLAVVCRRALNPLTPKPHRRPVNSSQKNMVRPRVDLIWKSPHFFNAIKE
Sbjct: 1  MWTSRVPIHAALLAVVCRRALNPLTPKPHRRPVNSSQKNMVRPRVDLIWKSPHFFNAIKE 60

Query: 61 RELDLRGNKIAVIENLGATE 81
          RELDLRGNKIAVIENLGATE
Sbjct: 61 RELDLRGNKIAVIENLGATE 80

BLAST of CmaCh17G013900 vs. ExPASy TrEMBL
Match: A0A453MJ78 (Uncharacterized protein OS=Aegilops tauschii subsp. strangulata OX=200361 PE=4 SV=1)

HSP 1 Score: 82.4 bits (202), Expect = 1.1e-12
Identity = 38/43 (88.37%), Postives = 40/43 (93.02%), Query Frame = 0

Query: 40  MVRPRVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATEVS 83
           MVR   DLIWKSPHFFNAIKERELDLRGNKIA+IEN+GATEVS
Sbjct: 59  MVRLNADLIWKSPHFFNAIKERELDLRGNKIAIIENIGATEVS 101

BLAST of CmaCh17G013900 vs. ExPASy TrEMBL
Match: A0A4D8YGK2 (U2 small nuclear ribonucleoprotein A OS=Salvia splendens OX=180675 GN=SNRPA1 PE=3 SV=1)

HSP 1 Score: 82.4 bits (202), Expect = 1.1e-12
Identity = 42/62 (67.74%), Postives = 47/62 (75.81%), Query Frame = 0

Query: 21 LNPLTPKPHR--RPVNSSQKNMVRPRVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGA 80
          L PL    H+  R  N S + MVR   DLIWKSPHFFNA++ERELDLRGNKIAVIEN+GA
Sbjct: 12 LLPLFSAQHKFEREENKSGEKMVRLTADLIWKSPHFFNAVRERELDLRGNKIAVIENVGA 71

BLAST of CmaCh17G013900 vs. ExPASy TrEMBL
Match: A0A6J1KWC8 (U2 small nuclear ribonucleoprotein A' OS=Cucurbita maxima OX=3661 GN=LOC111498166 PE=3 SV=1)

HSP 1 Score: 81.6 bits (200), Expect = 1.9e-12
Identity = 39/41 (95.12%), Postives = 39/41 (95.12%), Query Frame = 0

Query: 40 MVRPRVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATE 81
          MVR  VDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATE
Sbjct: 1  MVRLTVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATE 41

BLAST of CmaCh17G013900 vs. ExPASy TrEMBL
Match: E5GB46 (U2 small nuclear ribonucleoprotein a OS=Cucumis melo subsp. melo OX=412675 PE=3 SV=1)

HSP 1 Score: 81.6 bits (200), Expect = 1.9e-12
Identity = 39/41 (95.12%), Postives = 39/41 (95.12%), Query Frame = 0

Query: 40 MVRPRVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATE 81
          MVR  VDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATE
Sbjct: 1  MVRLTVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATE 41

BLAST of CmaCh17G013900 vs. NCBI nr
Match: XP_022991841.1 (U2 small nuclear ribonucleoprotein A'-like [Cucurbita maxima])

HSP 1 Score: 166.8 bits (421), Expect = 9.5e-38
Identity = 80/80 (100.00%), Postives = 80/80 (100.00%), Query Frame = 0

Query: 1  MWTSRVPIHAALLAVVCRRALNPLTPKPHRRPVNSSQKNMVRPRVDLIWKSPHFFNAIKE 60
          MWTSRVPIHAALLAVVCRRALNPLTPKPHRRPVNSSQKNMVRPRVDLIWKSPHFFNAIKE
Sbjct: 1  MWTSRVPIHAALLAVVCRRALNPLTPKPHRRPVNSSQKNMVRPRVDLIWKSPHFFNAIKE 60

Query: 61 RELDLRGNKIAVIENLGATE 81
          RELDLRGNKIAVIENLGATE
Sbjct: 61 RELDLRGNKIAVIENLGATE 80

BLAST of CmaCh17G013900 vs. NCBI nr
Match: KAG6791427.1 (hypothetical protein POTOM_000546 [Populus tomentosa])

HSP 1 Score: 83.6 bits (205), Expect = 1.1e-12
Identity = 43/56 (76.79%), Postives = 44/56 (78.57%), Query Frame = 0

Query: 40 MVRPRVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATEVSH---FHRLLSLVY 93
          MVR   DLIWKSPHFFNAIKERELDLRGNKI VIENLGATEV H    H L SL +
Sbjct: 1  MVRLTADLIWKSPHFFNAIKERELDLRGNKIPVIENLGATEVLHRLLLHELASLKF 56

BLAST of CmaCh17G013900 vs. NCBI nr
Match: KAF8708798.1 (hypothetical protein HU200_030187 [Digitaria exilis])

HSP 1 Score: 82.8 bits (203), Expect = 1.8e-12
Identity = 39/43 (90.70%), Postives = 40/43 (93.02%), Query Frame = 0

Query: 40 MVRPRVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATEVS 83
          MVR   DLIWKSPHFFNAIKERELDLRGNKIAV+ENLGATEVS
Sbjct: 1  MVRLTADLIWKSPHFFNAIKERELDLRGNKIAVVENLGATEVS 43

BLAST of CmaCh17G013900 vs. NCBI nr
Match: XP_023005060.1 (U2 small nuclear ribonucleoprotein A' [Cucurbita maxima])

HSP 1 Score: 81.6 bits (200), Expect = 4.0e-12
Identity = 39/41 (95.12%), Postives = 39/41 (95.12%), Query Frame = 0

Query: 40 MVRPRVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATE 81
          MVR  VDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATE
Sbjct: 1  MVRLTVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATE 41

BLAST of CmaCh17G013900 vs. NCBI nr
Match: XP_022960458.1 (U2 small nuclear ribonucleoprotein A' [Cucurbita moschata] >XP_023514252.1 U2 small nuclear ribonucleoprotein A' [Cucurbita pepo subsp. pepo] >KAG6592834.1 U2 small nuclear ribonucleoprotein A', partial [Cucurbita argyrosperma subsp. sororia] >KAG7025241.1 U2 small nuclear ribonucleoprotein A', partial [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 81.6 bits (200), Expect = 4.0e-12
Identity = 39/41 (95.12%), Postives = 39/41 (95.12%), Query Frame = 0

Query: 40 MVRPRVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATE 81
          MVR  VDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATE
Sbjct: 1  MVRLTVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATE 41

BLAST of CmaCh17G013900 vs. TAIR 10
Match: AT1G09760.1 (U2 small nuclear ribonucleoprotein A )

HSP 1 Score: 77.0 bits (188), Expect = 9.2e-15
Identity = 36/41 (87.80%), Postives = 37/41 (90.24%), Query Frame = 0

Query: 40 MVRPRVDLIWKSPHFFNAIKERELDLRGNKIAVIENLGATE 81
          MV+   DLIWKSPHFFNAIKERELDLRGNKI VIENLGATE
Sbjct: 1  MVKLTADLIWKSPHFFNAIKERELDLRGNKIPVIENLGATE 41

The following BLAST results are available for this feature:
Match NameE-valueIdentityDescription
P433331.3e-1387.80U2 small nuclear ribonucleoprotein A' OS=Arabidopsis thaliana OX=3702 GN=At1g097... [more]
P096612.9e-0557.50U2 small nuclear ribonucleoprotein A' OS=Homo sapiens OX=9606 GN=SNRPA1 PE=1 SV=... [more]
Q4R8Y82.9e-0557.50U2 small nuclear ribonucleoprotein A' OS=Macaca fascicularis OX=9541 GN=SNRPA1 P... [more]
P577842.9e-0557.50U2 small nuclear ribonucleoprotein A' OS=Mus musculus OX=10090 GN=Snrpa1 PE=1 SV... [more]
Q9BLB65.5e-0450.00Probable U2 small nuclear ribonucleoprotein A' OS=Caenorhabditis elegans OX=6239... [more]
Match NameE-valueIdentityDescription
A0A6J1JRX04.6e-38100.00U2 small nuclear ribonucleoprotein A'-like OS=Cucurbita maxima OX=3661 GN=LOC111... [more]
A0A453MJ781.1e-1288.37Uncharacterized protein OS=Aegilops tauschii subsp. strangulata OX=200361 PE=4 S... [more]
A0A4D8YGK21.1e-1267.74U2 small nuclear ribonucleoprotein A OS=Salvia splendens OX=180675 GN=SNRPA1 PE=... [more]
A0A6J1KWC81.9e-1295.12U2 small nuclear ribonucleoprotein A' OS=Cucurbita maxima OX=3661 GN=LOC11149816... [more]
E5GB461.9e-1295.12U2 small nuclear ribonucleoprotein a OS=Cucumis melo subsp. melo OX=412675 PE=3 ... [more]
Match NameE-valueIdentityDescription
XP_022991841.19.5e-38100.00U2 small nuclear ribonucleoprotein A'-like [Cucurbita maxima][more]
KAG6791427.11.1e-1276.79hypothetical protein POTOM_000546 [Populus tomentosa][more]
KAF8708798.11.8e-1290.70hypothetical protein HU200_030187 [Digitaria exilis][more]
XP_023005060.14.0e-1295.12U2 small nuclear ribonucleoprotein A' [Cucurbita maxima][more]
XP_022960458.14.0e-1295.12U2 small nuclear ribonucleoprotein A' [Cucurbita moschata] >XP_023514252.1 U2 sm... [more]
Match NameE-valueIdentityDescription
AT1G09760.19.2e-1587.80U2 small nuclear ribonucleoprotein A [more]
InterPro
Analysis Name: InterPro Annotations of Cucurbita maxima (Rimu) v1.1
Date Performed: 2021-10-25
IPR TermIPR DescriptionSourceSource TermSource DescriptionAlignment
NoneNo IPR availablePFAMPF14580LRR_9coord: 40..80
e-value: 4.8E-14
score: 52.3
NoneNo IPR availablePANTHERPTHR10552:SF8BNAC08G13840D PROTEINcoord: 40..81
IPR032675Leucine-rich repeat domain superfamilyGENE3D3.80.10.10Ribonuclease Inhibitorcoord: 40..94
e-value: 8.8E-7
score: 30.1
IPR044640U2 small nuclear ribonucleoprotein A'PANTHERPTHR10552U2 SMALL NUCLEAR RIBONUCLEOPROTEIN Acoord: 40..81

Relationships

The following mRNA feature(s) are a part of this gene:

Feature NameUnique NameType
CmaCh17G013900.1CmaCh17G013900.1mRNA


GO Annotation
GO Assignments
This gene is annotated with the following GO terms.
Category Term Accession Term Name
biological_process GO:0000398 mRNA splicing, via spliceosome
cellular_component GO:0015030 Cajal body
cellular_component GO:0005737 cytoplasm
molecular_function GO:0030620 U2 snRNA binding