Sed0002749.1 (mRNA) Chayote v1

Overview


Name	Sed0002749.1
Type	mRNA
Organism	Sechium edule (Chayote v1)
Description	replication protein A 70 kDa DNA-binding subunit A-like
Location	LG12: 9283629 .. 9284179 (-)
Sequence length	441
RNA-Seq Expression	Sed0002749.1
Synteny	Sed0002749.1

Sequences

The following sequences are available for this feature:

Gene sequence (with intron)

Legend: polypeptideCDSexon

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

ATGGAGTCTTCTGAAGTGTGTCTAAATGATATTATTTTGGGAAAAGTGAAAAAAGAATTTTGCAGTTTCATAGGAAGAATTGTGAGAATTCAAAATAAAAGTTCACTTTGGTTCAAAAAGTGTACATCTTGCAATAGAAGAGTATATCCAATAGGAAATGCTATCACAAGTTCATGTTCAATATGTAATAATGAATCTATTTCATTCGTACGAAGATTCATGTTAAAAGTGATAGTTTCAGATGGGGATTCAGAAGCCTACATTACCATGTTTGATGCTACTGAGCATTTAACAGGTTGTAATGTAGTTGAGTATTTCAATAATCTATCTCAGGTAAGTTTTACATTTTTATTAAGTTTCATAAACATTTAATTTCATAAATGTCGTCCATTCTTTATTTGAATACACAAATATTACATGATATGATTTTTTTTTTGTCTCAGGTTCAAAATAAGGAGAGTAGTGAATATTACCAAAACTTGGTTTTAGCCGAAGACAAGAAATACTACTTTTTAGTTAGATTGAATAAGGATGGAGAAAGAGATAGATAG

mRNA sequence

ATGGAGTCTTCTGAAGTGTGTCTAAATGATATTATTTTGGGAAAAGTGAAAAAAGAATTTTGCAGTTTCATAGGAAGAATTGTGAGAATTCAAAATAAAAGTTCACTTTGGTTCAAAAAGTGTACATCTTGCAATAGAAGAGTATATCCAATAGGAAATGCTATCACAAGTTCATGTTCAATATGTAATAATGAATCTATTTCATTCGTACGAAGATTCATGTTAAAAGTGATAGTTTCAGATGGGGATTCAGAAGCCTACATTACCATGTTTGATGCTACTGAGCATTTAACAGGTTGTAATGTAGTTGAGTATTTCAATAATCTATCTCAGGTTCAAAATAAGGAGAGTAGTGAATATTACCAAAACTTGGTTTTAGCCGAAGACAAGAAATACTACTTTTTAGTTAGATTGAATAAGGATGGAGAAAGAGATAGATAG

Coding sequence (CDS)

ATGGAGTCTTCTGAAGTGTGTCTAAATGATATTATTTTGGGAAAAGTGAAAAAAGAATTTTGCAGTTTCATAGGAAGAATTGTGAGAATTCAAAATAAAAGTTCACTTTGGTTCAAAAAGTGTACATCTTGCAATAGAAGAGTATATCCAATAGGAAATGCTATCACAAGTTCATGTTCAATATGTAATAATGAATCTATTTCATTCGTACGAAGATTCATGTTAAAAGTGATAGTTTCAGATGGGGATTCAGAAGCCTACATTACCATGTTTGATGCTACTGAGCATTTAACAGGTTGTAATGTAGTTGAGTATTTCAATAATCTATCTCAGGTTCAAAATAAGGAGAGTAGTGAATATTACCAAAACTTGGTTTTAGCCGAAGACAAGAAATACTACTTTTTAGTTAGATTGAATAAGGATGGAGAAAGAGATAGATAG

Protein sequence

MESSEVCLNDIILGKVKKEFCSFIGRIVRIQNKSSLWFKKCTSCNRRVYPIGNAITSSCSICNNESISFVRRFMLKVIVSDGDSEAYITMFDATEHLTGCNVVEYFNNLSQVQNKESSEYYQNLVLAEDKKYYFLVRLNKDGERDR

Homology

[Close]

BLAST of Sed0002749.1 vs. NCBI nr
Match: XP_020242959.1 (replication protein A 70 kDa DNA-binding subunit B-like [Asparagus officinalis])

HSP 1 Score: 93.2 bits (230), Expect = 2.0e-15
Identity = 48/130 (36.92%), Postives = 75/130 (57.69%), Query Frame = 0


Query: 17  KKEFCSFIGRIVRIQNKSSLWFKKCTSCNRRVYPIGNAITSSCSICNNESISFVRRFMLK 76
           K  FCSF+ +I+ I N    +F  CT C + V+ I N  T++C+ C N +  +  R+ L+
Sbjct: 251 KSMFCSFVAKIITIINAEEPFFSACTKCKKAVHEI-NGSTANCTNCKNGNSDWTIRYNLR 310

Query: 77  VIVSDGDSEAYITMFDATEHLTGCNVVEYFNNLSQVQNKESSEYYQNLVLAEDKKYYFLV 136
           + V+DG   AY+T+FD  E L GC  + Y     ++   ESSE YQ +    +K+Y FLV
Sbjct: 311 LEVNDGTDTAYVTLFDEAEILIGCTAIAYV----EMFEDESSECYQKMKSCLEKEYVFLV 370

Query: 137 RLNKDGERDR 147
           ++N+  E +R
Sbjct: 371 KINEKEESNR 375

[Close]

BLAST of Sed0002749.1 vs. NCBI nr
Match: XP_016476407.1 (PREDICTED: replication protein A 70 kDa DNA-binding subunit B-like [Nicotiana tabacum])

HSP 1 Score: 91.7 bits (226), Expect = 5.8e-15
Identity = 46/127 (36.22%), Postives = 74/127 (58.27%), Query Frame = 0


Query: 20  FCSFIGRIVRIQNKSSLWFKKCTSCNRRVYPIGNAITSSCSICNNESISFVRRFMLKVIV 79
           +  F  RI  I NK   W+  C  C ++V  I N   + C  C  E++ +  R++LK+ V
Sbjct: 246 YFKFNARIKDIMNKDEPWYSSCKKCYKKVDVINN--ITKCHRCGVENVDYQERYILKLEV 305

Query: 80  SDGDSEAYITMFDATEHLTGCNVVEYFNNLSQVQNKESSEYYQNLVLAEDKKYYFLVRLN 139
            D     Y+T+F++T +L GC+V  Y  ++S  QNKE S++Y+ LVL+ +KK+ FLV+++
Sbjct: 306 FDKKERYYVTLFESTRYLLGCDVTTYIQSIS--QNKEESKFYRKLVLSLEKKFTFLVKID 365

Query: 140 KDGERDR 147
                DR
Sbjct: 366 SKNGGDR 368

[Close]

BLAST of Sed0002749.1 vs. NCBI nr
Match: KAG5512925.1 (hypothetical protein RHGRI_038656 [Rhododendron griersonianum])

HSP 1 Score: 89.7 bits (221), Expect = 2.2e-14
Identity = 40/130 (30.77%), Postives = 76/130 (58.46%), Query Frame = 0


Query: 17  KKEFCSFIGRIVRIQNKSSLWFKKCTSCNRRVYPIGNAITSSCSICNNESISFVRRFMLK 76
           KK +C F G I+ I+N   +W++ C  C+++V+ I     + C  C++ +I    R+M+K
Sbjct: 353 KKMYCYFRGTIISIENMEKIWYEACAKCHKKVHVI--ETKAECHKCHSTNIEISPRYMMK 412

Query: 77  VIVSDGDSEAYITMFDATEHLTGCNVVEYFNNLSQVQNKESSEYYQNLVLAEDKKYYFLV 136
           + V DG  +  +T+FDA + L GC + E+   L+  +  E++++Y++L+    ++Y F  
Sbjct: 413 LTVGDGVQQINVTLFDAAKRLVGCTISEFIKVLN--EEGENNKFYKHLINCYGERYVFFT 472

Query: 137 RLNKDGERDR 147
           R N   ++DR
Sbjct: 473 RTNMGNDKDR 478

[Close]

BLAST of Sed0002749.1 vs. NCBI nr
Match: XP_016500091.1 (PREDICTED: replication protein A 70 kDa DNA-binding subunit A-like [Nicotiana tabacum])

HSP 1 Score: 88.6 bits (218), Expect = 4.9e-14
Identity = 43/127 (33.86%), Postives = 73/127 (57.48%), Query Frame = 0


Query: 20  FCSFIGRIVRIQNKSSLWFKKCTSCNRRVYPIGNAITSSCSICNNESISFVRRFMLKVIV 79
           +  F  RI  I NK   W+  C  C ++V  I N   + C  C  E++ +  +++LK+ V
Sbjct: 57  YFKFNARIKDIMNKDEPWYSSCKKCYKKVDVINN--IAKCHRCGVENVDYQEKYILKLEV 116

Query: 80  SDGDSEAYITMFDATEHLTGCNVVEYFNNLSQVQNKESSEYYQNLVLAEDKKYYFLVRLN 139
            D     Y+T+F++T +L GC+V  Y  ++S  Q KE S++Y+ LVL+ +K++ FLV+++
Sbjct: 117 FDKKERCYVTLFESTRYLLGCDVTTYIQSIS--QKKEESKFYRKLVLSREKEFTFLVKID 176

Query: 140 KDGERDR 147
                DR
Sbjct: 177 SKNGGDR 179

[Close]

BLAST of Sed0002749.1 vs. NCBI nr
Match: OIT08014.1 (hypothetical protein A4A49_30234 [Nicotiana attenuata])

HSP 1 Score: 87.8 bits (216), Expect = 8.4e-14
Identity = 43/127 (33.86%), Postives = 75/127 (59.06%), Query Frame = 0


Query: 13  LGKVKKEFCSFIGRIVRIQNKSSLWFKKCTSCNRRVYPIGNAITSSCSICNNESISFVRR 72
           +  + + +  F  +I  I NK   W+  C  C ++V  I +  T++C  CN E++ +  R
Sbjct: 130 ISTIPEIYHKFKAKITDIINKDEPWYSSCKKCFKKVDVIKD--TATCGSCNIENVDYESR 189

Query: 73  FMLKVIVSDGDSEAYITMFDATEHLTGCNVVEYFNNLSQVQNKESSEYYQNLVLAEDKKY 132
           + L++ VS G+    + +FDA E+L GC+V EY  ++     KE S YY+ LVL++DK++
Sbjct: 190 YCLRIEVSAGERRVRVILFDAAEYLFGCDVKEYIQSI--CTKKEESNYYRKLVLSKDKEF 249

Query: 133 YFLVRLN 140
            FLV+++
Sbjct: 250 IFLVKID 252

[Close]

BLAST of Sed0002749.1 vs. ExPASy TrEMBL
Match: A0A1S4AI89 (replication protein A 70 kDa DNA-binding subunit B-like OS=Nicotiana tabacum OX=4097 GN=LOC107797997 PE=4 SV=1)

HSP 1 Score: 91.7 bits (226), Expect = 2.8e-15
Identity = 46/127 (36.22%), Postives = 74/127 (58.27%), Query Frame = 0


Query: 20  FCSFIGRIVRIQNKSSLWFKKCTSCNRRVYPIGNAITSSCSICNNESISFVRRFMLKVIV 79
           +  F  RI  I NK   W+  C  C ++V  I N   + C  C  E++ +  R++LK+ V
Sbjct: 246 YFKFNARIKDIMNKDEPWYSSCKKCYKKVDVINN--ITKCHRCGVENVDYQERYILKLEV 305

Query: 80  SDGDSEAYITMFDATEHLTGCNVVEYFNNLSQVQNKESSEYYQNLVLAEDKKYYFLVRLN 139
            D     Y+T+F++T +L GC+V  Y  ++S  QNKE S++Y+ LVL+ +KK+ FLV+++
Sbjct: 306 FDKKERYYVTLFESTRYLLGCDVTTYIQSIS--QNKEESKFYRKLVLSLEKKFTFLVKID 365

Query: 140 KDGERDR 147
                DR
Sbjct: 366 SKNGGDR 368

[Close]

BLAST of Sed0002749.1 vs. ExPASy TrEMBL
Match: A0A1S4CG46 (replication protein A 70 kDa DNA-binding subunit A-like OS=Nicotiana tabacum OX=4097 GN=LOC107818567 PE=4 SV=1)

HSP 1 Score: 88.6 bits (218), Expect = 2.4e-14
Identity = 43/127 (33.86%), Postives = 73/127 (57.48%), Query Frame = 0


Query: 20  FCSFIGRIVRIQNKSSLWFKKCTSCNRRVYPIGNAITSSCSICNNESISFVRRFMLKVIV 79
           +  F  RI  I NK   W+  C  C ++V  I N   + C  C  E++ +  +++LK+ V
Sbjct: 57  YFKFNARIKDIMNKDEPWYSSCKKCYKKVDVINN--IAKCHRCGVENVDYQEKYILKLEV 116

Query: 80  SDGDSEAYITMFDATEHLTGCNVVEYFNNLSQVQNKESSEYYQNLVLAEDKKYYFLVRLN 139
            D     Y+T+F++T +L GC+V  Y  ++S  Q KE S++Y+ LVL+ +K++ FLV+++
Sbjct: 117 FDKKERCYVTLFESTRYLLGCDVTTYIQSIS--QKKEESKFYRKLVLSREKEFTFLVKID 176

Query: 140 KDGERDR 147
                DR
Sbjct: 177 SKNGGDR 179

[Close]

BLAST of Sed0002749.1 vs. ExPASy TrEMBL
Match: A0A1J6IT36 (Rep_fac-A_C domain-containing protein OS=Nicotiana attenuata OX=49451 GN=A4A49_30234 PE=4 SV=1)

HSP 1 Score: 87.8 bits (216), Expect = 4.0e-14
Identity = 43/127 (33.86%), Postives = 75/127 (59.06%), Query Frame = 0


Query: 13  LGKVKKEFCSFIGRIVRIQNKSSLWFKKCTSCNRRVYPIGNAITSSCSICNNESISFVRR 72
           +  + + +  F  +I  I NK   W+  C  C ++V  I +  T++C  CN E++ +  R
Sbjct: 130 ISTIPEIYHKFKAKITDIINKDEPWYSSCKKCFKKVDVIKD--TATCGSCNIENVDYESR 189

Query: 73  FMLKVIVSDGDSEAYITMFDATEHLTGCNVVEYFNNLSQVQNKESSEYYQNLVLAEDKKY 132
           + L++ VS G+    + +FDA E+L GC+V EY  ++     KE S YY+ LVL++DK++
Sbjct: 190 YCLRIEVSAGERRVRVILFDAAEYLFGCDVKEYIQSI--CTKKEESNYYRKLVLSKDKEF 249

Query: 133 YFLVRLN 140
            FLV+++
Sbjct: 250 IFLVKID 252

[Close]

BLAST of Sed0002749.1 vs. ExPASy TrEMBL
Match: A0A1S4BAI4 (replication protein A 70 kDa DNA-binding subunit B-like OS=Nicotiana tabacum OX=4097 GN=LOC107806315 PE=4 SV=1)

HSP 1 Score: 87.4 bits (215), Expect = 5.3e-14
Identity = 43/127 (33.86%), Postives = 72/127 (56.69%), Query Frame = 0


Query: 20  FCSFIGRIVRIQNKSSLWFKKCTSCNRRVYPIGNAITSSCSICNNESISFVRRFMLKVIV 79
           +  F  RI  I NK   W+  C  C ++V  I N   + C  C  E++ +  R++LK+ V
Sbjct: 285 YFKFNARIKDIMNKDEPWYSSCKKCYKKVDVINN--IAKCHHCGVENVDYQERYILKLEV 344

Query: 80  SDGDSEAYITMFDATEHLTGCNVVEYFNNLSQVQNKESSEYYQNLVLAEDKKYYFLVRLN 139
            D     Y+T+F++T +L GC+V  Y  ++S  Q KE  ++Y+ LVL+ +K++ FLV+++
Sbjct: 345 FDKKERCYVTLFESTRYLLGCDVTTYIQSIS--QKKEEFKFYRKLVLSREKEFTFLVKID 404

Query: 140 KDGERDR 147
                DR
Sbjct: 405 SKNGGDR 407

[Close]

BLAST of Sed0002749.1 vs. ExPASy TrEMBL
Match: A0A6A4KQR7 (Rep_fac-A_C domain-containing protein (Fragment) OS=Rhododendron williamsianum OX=262921 GN=C3L33_22861 PE=4 SV=1)

HSP 1 Score: 85.9 bits (211), Expect = 1.5e-13
Identity = 37/131 (28.24%), Postives = 76/131 (58.02%), Query Frame = 0


Query: 16  VKKEFCSFIGRIVRIQNKSSLWFKKCTSCNRRVYPIGNAITSSCSICNNESISFVRRFML 75
           ++K +C F G I+ I+N   +W++ C  C+++V+ I     + C  C + +I    R+M+
Sbjct: 183 MRKMYCYFRGTIISIENMEKIWYEACAKCHKKVHVI--ETKAECHKCRSTNIEISPRYMM 242

Query: 76  KVIVSDGDSEAYITMFDATEHLTGCNVVEYFNNLSQVQNKESSEYYQNLVLAEDKKYYFL 135
           K+ V DG  +  +T+FDA + L GC + E+   L+  +  E++++Y++L+    ++Y F 
Sbjct: 243 KLTVGDGVQQINVTLFDAAKRLVGCTISEFIKVLN--EEGENNKFYKHLINCYGERYMFF 302

Query: 136 VRLNKDGERDR 147
            + N   ++D+
Sbjct: 303 TKTNMGNDKDQ 309

The following BLAST results are available for this feature:

BLAST of Sed0002749.1 vs. NCBI nr


Match Name	E-value	Identity	Description
XP_020242959.1	2.0e-15	36.92	replication protein A 70 kDa DNA-binding subunit B-like [Asparagus officinalis]	[more]
XP_016476407.1	5.8e-15	36.22	PREDICTED: replication protein A 70 kDa DNA-binding subunit B-like [Nicotiana ta...	[more]
KAG5512925.1	2.2e-14	30.77	hypothetical protein RHGRI_038656 [Rhododendron griersonianum]	[more]
XP_016500091.1	4.9e-14	33.86	PREDICTED: replication protein A 70 kDa DNA-binding subunit A-like [Nicotiana ta...	[more]
OIT08014.1	8.4e-14	33.86	hypothetical protein A4A49_30234 [Nicotiana attenuata]	[more]

BLAST of Sed0002749.1 vs. NCBI nr


Match Name	E-value	Identity	Description

BLAST of Sed0002749.1 vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A1S4AI89	2.8e-15	36.22	replication protein A 70 kDa DNA-binding subunit B-like OS=Nicotiana tabacum OX=...	[more]
A0A1S4CG46	2.4e-14	33.86	replication protein A 70 kDa DNA-binding subunit A-like OS=Nicotiana tabacum OX=...	[more]
A0A1J6IT36	4.0e-14	33.86	Rep_fac-A_C domain-containing protein OS=Nicotiana attenuata OX=49451 GN=A4A49_3...	[more]
A0A1S4BAI4	5.3e-14	33.86	replication protein A 70 kDa DNA-binding subunit B-like OS=Nicotiana tabacum OX=...	[more]
A0A6A4KQR7	1.5e-13	28.24	Rep_fac-A_C domain-containing protein (Fragment) OS=Rhododendron williamsianum O...	[more]

BLAST of Sed0002749.1 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	GENE3D	2.40.50.140		coord: 4..145 e-value: 5.0E-18 score: 67.1
None	No IPR available	PANTHER	PTHR23273:SF46	REPLICATION PROTEIN A 70 KDA DNA-BINDING SUBUNIT B-LIKE	coord: 5..140
None	No IPR available	PANTHER	PTHR23273	REPLICATION FACTOR A 1, RFA1	coord: 5..140
IPR013955	Replication factor A, C-terminal	PFAM	PF08646	Rep_fac-A_C	coord: 21..141 e-value: 1.6E-10 score: 40.9
IPR012340	Nucleic acid-binding, OB-fold	SUPERFAMILY	50249	Nucleic acid-binding proteins	coord: 15..141

Relationships

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


Feature Name	Unique Name	Type
Sed0002749	Sed0002749	gene

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


Feature Name	Unique Name	Type
Sed0002749.1-cds	Sed0002749.1-cds-LG12:9283629..9283736	CDS
Sed0002749.1-cds	Sed0002749.1-cds-LG12:9283847..9284179	CDS

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


Feature Name	Unique Name	Type
Sed0002749.1-exon	Sed0002749.1-exon-LG12:9283629..9283736	exon
Sed0002749.1-exon	Sed0002749.1-exon-LG12:9283847..9284179	exon

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


Feature Name	Unique Name	Type
Sed0002749.1	Sed0002749.1-protein	polypeptide