Sed0002431.1 (mRNA) Chayote v1

Overview


Name	Sed0002431.1
Type	mRNA
Organism	Sechium edule (Chayote v1)
Description	LINE-1 retrotransposable element ORF2 protein
Location	LG09: 29470418 .. 29470918 (-)
Sequence length	501
RNA-Seq Expression	Sed0002431.1
Synteny	Sed0002431.1

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: exonCDSpolypeptide

Hold the cursor over a type above to highlight its positions in the sequence below.

ATGCGAGTTACTCCGATCATGACCCTGATTGACAGATTTCTGCTCACCGATGATATGATAAACAAATTTGATTGTGCCAAGGCTCGCAGGCTGGAGAGGGTCACATCTGACCACTATCCCATTTGCCTTCCTCTTAGTAAAGAAAGATGGGGCCCGACCCCTTTTAGATTTATGAACACATGGTTGGATCATCGCTCTTTTACCCCCCTGTTGGAGAAATGGTGGTTGGATAATGCTATTTGTGATTGGCCTGGACATGGATTCATCCAAAAGCTCAAAGCTTTTAAGTTGATTGTTAAGGAATGGAATCACAGAACTTTTAGTCATCATAAGGCTTTTTGCCTTGCTTTCAAAGAAGAGCTTGACTCCATTGACAACGAAGAAGAATTGGCTAATTTAACCACAAATGAATTGCACAGAAGGCTTGAAATCAAGGCTGAGATTATGGAATTGACTTCTAGGGAAGATGCTCTCCGGCGGCAAAGGTGCACAGCGCAGTGA

mRNA sequence

ATGCGAGTTACTCCGATCATGACCCTGATTGACAGATTTCTGCTCACCGATGATATGATAAACAAATTTGATTGTGCCAAGGCTCGCAGGCTGGAGAGGGTCACATCTGACCACTATCCCATTTGCCTTCCTCTTAGTAAAGAAAGATGGGGCCCGACCCCTTTTAGATTTATGAACACATGGTTGGATCATCGCTCTTTTACCCCCCTGTTGGAGAAATGGTGGTTGGATAATGCTATTTGTGATTGGCCTGGACATGGATTCATCCAAAAGCTCAAAGCTTTTAAGTTGATTGTTAAGGAATGGAATCACAGAACTTTTAGTCATCATAAGGCTTTTTGCCTTGCTTTCAAAGAAGAGCTTGACTCCATTGACAACGAAGAAGAATTGGCTAATTTAACCACAAATGAATTGCACAGAAGGCTTGAAATCAAGGCTGAGATTATGGAATTGACTTCTAGGGAAGATGCTCTCCGGCGGCAAAGGTGCACAGCGCAGTGA

Coding sequence (CDS)

ATGCGAGTTACTCCGATCATGACCCTGATTGACAGATTTCTGCTCACCGATGATATGATAAACAAATTTGATTGTGCCAAGGCTCGCAGGCTGGAGAGGGTCACATCTGACCACTATCCCATTTGCCTTCCTCTTAGTAAAGAAAGATGGGGCCCGACCCCTTTTAGATTTATGAACACATGGTTGGATCATCGCTCTTTTACCCCCCTGTTGGAGAAATGGTGGTTGGATAATGCTATTTGTGATTGGCCTGGACATGGATTCATCCAAAAGCTCAAAGCTTTTAAGTTGATTGTTAAGGAATGGAATCACAGAACTTTTAGTCATCATAAGGCTTTTTGCCTTGCTTTCAAAGAAGAGCTTGACTCCATTGACAACGAAGAAGAATTGGCTAATTTAACCACAAATGAATTGCACAGAAGGCTTGAAATCAAGGCTGAGATTATGGAATTGACTTCTAGGGAAGATGCTCTCCGGCGGCAAAGGTGCACAGCGCAGTGA

Protein sequence

MRVTPIMTLIDRFLLTDDMINKFDCAKARRLERVTSDHYPICLPLSKERWGPTPFRFMNTWLDHRSFTPLLEKWWLDNAICDWPGHGFIQKLKAFKLIVKEWNHRTFSHHKAFCLAFKEELDSIDNEEELANLTTNELHRRLEIKAEIMELTSREDALRRQRCTAQ

Homology

[Close]

BLAST of Sed0002431.1 vs. NCBI nr
Match: XP_022158956.1 (uncharacterized protein LOC111025405 [Momordica charantia])

HSP 1 Score: 128.6 bits (322), Expect = 4.9e-26
Identity = 63/160 (39.38%), Postives = 95/160 (59.38%), Query Frame = 0


Query: 8   TLIDRFLLTDDMINKFDCAKARRLERVTSDHYPICLPLSKERWGPTPFRFMNTWLDHRSF 67
           +LID FLLT+  I+K     A+R+ R TSDH+PI L   +  WG TPFRF N WL H++F
Sbjct: 191 SLIDCFLLTNGCIDKLGMPIAKRMTRTTSDHFPILLDFGQNNWGLTPFRFENMWLSHKTF 250

Query: 68  TPLLEKWWLDNAICDWPGHGFIQKLKAFKLIVKEWNHRTFSHHKAFCLAFKEEL----DS 127
            P LE WW +  +  WPGHG + KLK+ K  +K W     + H     + KE+L    +S
Sbjct: 251 KPFLETWWGNKPLHGWPGHGLMMKLKSLKYAIKLW----ITEHFRCIHSQKEDLTNLMNS 310

Query: 128 IDNEEELANLTTNELHRRLEIKAEIMELTSREDALRRQRC 164
           +D+ E    +T ++   R++ K +++ + ++E+A  RQRC
Sbjct: 311 LDDLEGSQPVTPDQSRARIQAKEDLLSVVAKEEAFWRQRC 346

[Close]

BLAST of Sed0002431.1 vs. NCBI nr
Match: KAA0035247.1 (LINE-1 retrotransposable element ORF2 protein [Cucumis melo var. makuwa] >TYK22402.1 LINE-1 retrotransposable element ORF2 protein [Cucumis melo var. makuwa])

HSP 1 Score: 115.2 bits (287), Expect = 5.6e-22
Identity = 55/162 (33.95%), Postives = 90/162 (55.56%), Query Frame = 0


Query: 1   MRVTPIMTLIDRFLLTDDMINKFDCAKARRLERVTSDHYPICLPLSKERWGPTPFRFMNT 60
           +R+ P  + +DRFLL+    N F    +R +ER+ SDH+PI L   + +WGP PFR  N+
Sbjct: 749 LRLNPTYSCLDRFLLSKGWENTFGLHTSRTMERIVSDHFPIILESPQIKWGPCPFRLNNS 808

Query: 61  WLDHRSFTPLLEKWWLDNAICDWPGHGFIQKLKAFKLIVKEWNHRTFSHHKAFCLAFKEE 120
            L  + F      WW ++    +PG+ FIQ LK+   ++KEW H   + + A      EE
Sbjct: 809 SLKDKEFQKNFPDWWNNSKQFGFPGYAFIQSLKSLSKLIKEWQHNKVNLYDAKRKVLLEE 868

Query: 121 LDSIDNEEELANLTTNELHRRLEIKAEIMELTSREDALRRQR 163
           +DSID  E   N++T    +R+ +K+E++ + + +  +  QR
Sbjct: 869 IDSIDKLELQGNMSTIHHQKRISLKSELLSIENNQALIWHQR 910

[Close]

BLAST of Sed0002431.1 vs. NCBI nr
Match: RVW19678.1 (Structural maintenance of chromosomes protein 3, partial [Vitis vinifera])

HSP 1 Score: 110.5 bits (275), Expect = 1.4e-20
Identity = 60/162 (37.04%), Postives = 82/162 (50.62%), Query Frame = 0


Query: 1   MRVTPIMTLIDRFLLTDDMINKFDCAKARRLERVTSDHYPICLPLSKERWGPTPFRFMNT 60
           M+V PI   +DRFL + +  + F       L R TSDH PICL  +   WGPTPFRF N 
Sbjct: 37  MQVDPICKRLDRFLFSSEWDSFFSQNIQEALPRWTSDHSPICLETNPFMWGPTPFRFENM 96

Query: 61  WLDHRSFTPLLEKWWLDNAICDWPGHGFIQKLKAFKLIVKEWNHRTFSHHKAFCLAFKEE 120
           WL H  F      WW +  +  W GH F++KLK  K  +KEWN R F   +        +
Sbjct: 97  WLLHPEFKEKFRDWWQECTVEGWEGHKFMRKLKFIKSKLKEWNTRVFGDLRERKKHILTD 156

Query: 121 LDSIDNEEELANLTTNELHRRLEIKAEIMELTSREDALRRQR 163
           L  ID  E+  NL    +  R+  + E+ +L  +E+   RQ+
Sbjct: 157 LGRIDRIEQEGNLNLELVSERILRRKELEDLLLKEEVQWRQK 198

[Close]

BLAST of Sed0002431.1 vs. NCBI nr
Match: RVX12042.1 (Splicing factor 3A subunit 2 [Vitis vinifera])

HSP 1 Score: 110.5 bits (275), Expect = 1.4e-20
Identity = 60/162 (37.04%), Postives = 82/162 (50.62%), Query Frame = 0


Query: 1   MRVTPIMTLIDRFLLTDDMINKFDCAKARRLERVTSDHYPICLPLSKERWGPTPFRFMNT 60
           M+V PI   +DRFL + +  + F       L R TSDH PICL  +   WGPTPFRF N 
Sbjct: 586 MQVDPICKRLDRFLFSSEWDSFFSQNIQEALPRWTSDHSPICLETNPFMWGPTPFRFENM 645

Query: 61  WLDHRSFTPLLEKWWLDNAICDWPGHGFIQKLKAFKLIVKEWNHRTFSHHKAFCLAFKEE 120
           WL H  F      WW +  +  W GH F++KLK  K  +KEWN R F   +        +
Sbjct: 646 WLLHPEFKEKFRDWWQECTVEGWEGHKFMRKLKFIKSKLKEWNTRVFGDLRERKKHILTD 705

Query: 121 LDSIDNEEELANLTTNELHRRLEIKAEIMELTSREDALRRQR 163
           L  ID  E+  NL    +  R+  + E+ +L  +E+   RQ+
Sbjct: 706 LGRIDRIEQEGNLNLELVSERILRRKELEDLLLKEEVQWRQK 747

[Close]

BLAST of Sed0002431.1 vs. NCBI nr
Match: RVW51134.1 (SWI/SNF complex subunit SWI3C [Vitis vinifera])

HSP 1 Score: 110.2 bits (274), Expect = 1.8e-20
Identity = 60/162 (37.04%), Postives = 83/162 (51.23%), Query Frame = 0


Query: 1   MRVTPIMTLIDRFLLTDDMINKFDCAKARRLERVTSDHYPICLPLSKERWGPTPFRFMNT 60
           M+V PI   +DRFL + +  + F       L R TSDH PICL  +   WGPTPFRF N 
Sbjct: 302 MQVDPICKRLDRFLFSAEWDSFFSQNIQEALPRWTSDHSPICLETNPFMWGPTPFRFENM 361

Query: 61  WLDHRSFTPLLEKWWLDNAICDWPGHGFIQKLKAFKLIVKEWNHRTFSHHKAFCLAFKEE 120
           WL H  F      WW + ++  W GH F++KLK  K  +KEWN R F   +        +
Sbjct: 362 WLLHPEFKEKFRDWWQECSVEGWEGHKFMRKLKFIKSKLKEWNTRVFGDLRERKKHILTD 421

Query: 121 LDSIDNEEELANLTTNELHRRLEIKAEIMELTSREDALRRQR 163
           L  ID  E+  NL    +  R+  + E+ +L  +E+   RQ+
Sbjct: 422 LGRIDRIEQEGNLNLELVSERILRRKELEDLLLKEEVQWRQK 463

[Close]

BLAST of Sed0002431.1 vs. ExPASy TrEMBL
Match: A0A6J1E2G6 (uncharacterized protein LOC111025405 OS=Momordica charantia OX=3673 GN=LOC111025405 PE=4 SV=1)

HSP 1 Score: 128.6 bits (322), Expect = 2.4e-26
Identity = 63/160 (39.38%), Postives = 95/160 (59.38%), Query Frame = 0


Query: 8   TLIDRFLLTDDMINKFDCAKARRLERVTSDHYPICLPLSKERWGPTPFRFMNTWLDHRSF 67
           +LID FLLT+  I+K     A+R+ R TSDH+PI L   +  WG TPFRF N WL H++F
Sbjct: 191 SLIDCFLLTNGCIDKLGMPIAKRMTRTTSDHFPILLDFGQNNWGLTPFRFENMWLSHKTF 250

Query: 68  TPLLEKWWLDNAICDWPGHGFIQKLKAFKLIVKEWNHRTFSHHKAFCLAFKEEL----DS 127
            P LE WW +  +  WPGHG + KLK+ K  +K W     + H     + KE+L    +S
Sbjct: 251 KPFLETWWGNKPLHGWPGHGLMMKLKSLKYAIKLW----ITEHFRCIHSQKEDLTNLMNS 310

Query: 128 IDNEEELANLTTNELHRRLEIKAEIMELTSREDALRRQRC 164
           +D+ E    +T ++   R++ K +++ + ++E+A  RQRC
Sbjct: 311 LDDLEGSQPVTPDQSRARIQAKEDLLSVVAKEEAFWRQRC 346

[Close]

BLAST of Sed0002431.1 vs. ExPASy TrEMBL
Match: A0A5D3DFM9 (LINE-1 retrotransposable element ORF2 protein OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold173G00270 PE=4 SV=1)

HSP 1 Score: 115.2 bits (287), Expect = 2.7e-22
Identity = 55/162 (33.95%), Postives = 90/162 (55.56%), Query Frame = 0


Query: 1   MRVTPIMTLIDRFLLTDDMINKFDCAKARRLERVTSDHYPICLPLSKERWGPTPFRFMNT 60
           +R+ P  + +DRFLL+    N F    +R +ER+ SDH+PI L   + +WGP PFR  N+
Sbjct: 749 LRLNPTYSCLDRFLLSKGWENTFGLHTSRTMERIVSDHFPIILESPQIKWGPCPFRLNNS 808

Query: 61  WLDHRSFTPLLEKWWLDNAICDWPGHGFIQKLKAFKLIVKEWNHRTFSHHKAFCLAFKEE 120
            L  + F      WW ++    +PG+ FIQ LK+   ++KEW H   + + A      EE
Sbjct: 809 SLKDKEFQKNFPDWWNNSKQFGFPGYAFIQSLKSLSKLIKEWQHNKVNLYDAKRKVLLEE 868

Query: 121 LDSIDNEEELANLTTNELHRRLEIKAEIMELTSREDALRRQR 163
           +DSID  E   N++T    +R+ +K+E++ + + +  +  QR
Sbjct: 869 IDSIDKLELQGNMSTIHHQKRISLKSELLSIENNQALIWHQR 910

[Close]

BLAST of Sed0002431.1 vs. ExPASy TrEMBL
Match: A0A803QEA6 (Uncharacterized protein OS=Cannabis sativa OX=3483 PE=4 SV=1)

HSP 1 Score: 111.3 bits (277), Expect = 3.9e-21
Identity = 55/155 (35.48%), Postives = 85/155 (54.84%), Query Frame = 0


Query: 2   RVTPIMTLIDRFLLTDDMINKFDCAKARRLERVTSDHYPICLPLSKERWGPTPFRFMNTW 61
           R +P+ + +DRFL T++    F   +   L R+ SDH P+ +  +  +WGP PFRF N W
Sbjct: 538 RASPVCSRLDRFLFTNNWNIIFPFVRQELLVRIVSDHSPVVIDSNPPKWGPGPFRFDNHW 597

Query: 62  LDHRSFTPLLEKWWLDNAICDWPGHGFIQKLKAFKLIVKEWNHRTFSHHKAFCLAFKEEL 121
           LDH+SF+   E+WW +     WPG  F++KLK  +  VKEW+  TF  ++A  +A +  L
Sbjct: 598 LDHKSFSKCFERWWKEEINDGWPGTKFMKKLKILQGKVKEWSKSTFGQNRAKKIALEGRL 657

Query: 122 DSIDNEEELANLTTNELHRRLEIKAEIMELTSRED 157
             +D  E  +    + L  R ++K E   L   E+
Sbjct: 658 GVLDKLEGTSFWNQSLLDERRKLKEEWKWLNFEEE 692

[Close]

BLAST of Sed0002431.1 vs. ExPASy TrEMBL
Match: A0A803QQM3 (Uncharacterized protein OS=Cannabis sativa OX=3483 PE=4 SV=1)

HSP 1 Score: 110.9 bits (276), Expect = 5.1e-21
Identity = 53/155 (34.19%), Postives = 86/155 (55.48%), Query Frame = 0


Query: 2    RVTPIMTLIDRFLLTDDMINKFDCAKARRLERVTSDHYPICLPLSKERWGPTPFRFMNTW 61
            R +P+ + +DRFL +++    +   +   L R+ SDH P+ +  +  +WGP PFRF N W
Sbjct: 1111 RASPVCSRLDRFLFSNNWNVIYPFVRQEMLVRLVSDHSPVVIDSNPPKWGPGPFRFDNHW 1170

Query: 62   LDHRSFTPLLEKWWLDNAICDWPGHGFIQKLKAFKLIVKEWNHRTFSHHKAFCLAFKEEL 121
            L+H+SF+   E WW +     WPG  F++KLK  +  VKEW+  TF  +KA  +A +  L
Sbjct: 1171 LEHKSFSKCFESWWKEEINDGWPGTKFMKKLKLLQGKVKEWSKSTFGQNKATKIALEGRL 1230

Query: 122  DSIDNEEELANLTTNELHRRLEIKAEIMELTSRED 157
              +D  E  ++   + L  R ++K E  +L   E+
Sbjct: 1231 GVLDRLEGTSSWNQSVLDERRKLKEEWQQLHFEEE 1265

[Close]

BLAST of Sed0002431.1 vs. ExPASy TrEMBL
Match: A0A438JSU9 (Splicing factor 3A subunit 2 OS=Vitis vinifera OX=29760 GN=sf3a2 PE=3 SV=1)

HSP 1 Score: 110.5 bits (275), Expect = 6.6e-21
Identity = 60/162 (37.04%), Postives = 82/162 (50.62%), Query Frame = 0


Query: 1   MRVTPIMTLIDRFLLTDDMINKFDCAKARRLERVTSDHYPICLPLSKERWGPTPFRFMNT 60
           M+V PI   +DRFL + +  + F       L R TSDH PICL  +   WGPTPFRF N 
Sbjct: 586 MQVDPICKRLDRFLFSSEWDSFFSQNIQEALPRWTSDHSPICLETNPFMWGPTPFRFENM 645

Query: 61  WLDHRSFTPLLEKWWLDNAICDWPGHGFIQKLKAFKLIVKEWNHRTFSHHKAFCLAFKEE 120
           WL H  F      WW +  +  W GH F++KLK  K  +KEWN R F   +        +
Sbjct: 646 WLLHPEFKEKFRDWWQECTVEGWEGHKFMRKLKFIKSKLKEWNTRVFGDLRERKKHILTD 705

Query: 121 LDSIDNEEELANLTTNELHRRLEIKAEIMELTSREDALRRQR 163
           L  ID  E+  NL    +  R+  + E+ +L  +E+   RQ+
Sbjct: 706 LGRIDRIEQEGNLNLELVSERILRRKELEDLLLKEEVQWRQK 747

The following BLAST results are available for this feature:

BLAST of Sed0002431.1 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_022158956.1	4.9e-26	39.38	uncharacterized protein LOC111025405 [Momordica charantia]	[more]
KAA0035247.1	5.6e-22	33.95	LINE-1 retrotransposable element ORF2 protein [Cucumis melo var. makuwa] >TYK224...	[more]
RVW19678.1	1.4e-20	37.04	Structural maintenance of chromosomes protein 3, partial [Vitis vinifera]	[more]
RVX12042.1	1.4e-20	37.04	Splicing factor 3A subunit 2 [Vitis vinifera]	[more]
RVW51134.1	1.8e-20	37.04	SWI/SNF complex subunit SWI3C [Vitis vinifera]	[more]

BLAST of Sed0002431.1 vs. NCBI nr


Match Name	E-value	Identity	Description

BLAST of Sed0002431.1 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A6J1E2G6	2.4e-26	39.38	uncharacterized protein LOC111025405 OS=Momordica charantia OX=3673 GN=LOC111025...	[more]
A0A5D3DFM9	2.7e-22	33.95	LINE-1 retrotransposable element ORF2 protein OS=Cucumis melo var. makuwa OX=119...	[more]
A0A803QEA6	3.9e-21	35.48	Uncharacterized protein OS=Cannabis sativa OX=3483 PE=4 SV=1	[more]
A0A803QQM3	5.1e-21	34.19	Uncharacterized protein OS=Cannabis sativa OX=3483 PE=4 SV=1	[more]
A0A438JSU9	6.6e-21	37.04	Splicing factor 3A subunit 2 OS=Vitis vinifera OX=29760 GN=sf3a2 PE=3 SV=1	[more]

BLAST of Sed0002431.1 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description

InterPro

Analysis Name: InterPro Annotations of Chayote (edule) v1
Date Performed: 2021-10-25

Position :

Zoom :

x 1


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	COILS	Coil	Coil	coord: 141..161

Relationships

This mRNA is a part of the following gene feature(s):


Feature Name	Unique Name	Type
Sed0002431	Sed0002431	gene

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


Feature Name	Unique Name	Type
Sed0002431.1-exon	Sed0002431.1-exon-LG09:29470418..29470918	exon

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


Feature Name	Unique Name	Type
Sed0002431.1-cds	Sed0002431.1-cds-LG09:29470418..29470918	CDS

The following polypeptide feature(s) derives from this mRNA:


Feature Name	Unique Name	Type
Sed0002431.1	Sed0002431.1-protein	polypeptide

GO Annotation

GO Assignments

This mRNA is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0009987	cellular process
cellular_component	GO:0110165	cellular anatomical entity
molecular_function	GO:0005488	binding