Carg13827-RA (mRNA) Silver-seed gourd (SMH-JMG-627) v2

Overview


Name	Carg13827-RA
Type	mRNA
Organism	Cucurbita argyrosperma subsp. argyrosperma cv. SMH-JMG-627 (Silver-seed gourd (SMH-JMG-627) v2)
Description	Retrovirus-related Pol polyprotein from transposon RE1
Location	Carg_Chr17: 3933751 .. 3934408 (+)
Sequence length	345
RNA-Seq Expression	Carg13827-RA
Synteny	Carg13827-RA

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.

ATGGCCTCACACCCCGCATATCTGGGTGCACCGCCTTTGTTCATGTTCACAACACCTAAAGAGGTAAACTTGATCCAAGTGCAAGAAAATGTGTCTATTTAGGATTTTTTTTTACCAAAGGGGACAAAAGTTATAATCCCACATCTAGGAAGTCTTACACTTCAATTGATGTAACTTTCACAGAACATAAACCGTTTTTCTATAAGGCCTCTCTTCAAGGGGAGAATATAGAGATTGAAGAGAGTTCTGGGAAACTATTGAGCCCCTAGACACACCAAATAACCATCATGCAAAACCAGTTATTGAGTCCGCACCTTCTATCGATGAGCCCTTTCCTACTACTATAGAGCTACCAATTGAACCATATGTTCCACCTCCATTACCAAATCCGTTGTTCTCTCAGGTATATGCTAGAAGGAAAGTCATTTCAGAACCAATACAAGTCCAAACATCTGACTCTACTCACAATGAAGATGCAACACAGGTACCAATAGATAATAGACCAACATCCAACTCTACCCATAATGAAGATGCAACACAGGTATCAATAAATGACAGAGCCATAGCTCTCCGGAAACCCACTGGAGAATGCACAAAACGACCTTTATACCCCCTAGCAAACTATATCTCTCTTGAAAGGCTATCCTCACTACACAAA

mRNA sequence

ATGGCCTCACACCCCGCATATCTGGGTGCACCGCCTTTGTTCATGTTCACAACACCTAAAGAGGTAAACTTGATCCAAGTGCAAGAAAATGTATATGCTAGAAGGAAAGTCATTTCAGAACCAATACAAGTCCAAACATCTGACTCTACTCACAATGAAGATGCAACACAGGTACCAATAGATAATAGACCAACATCCAACTCTACCCATAATGAAGATGCAACACAGGTATCAATAAATGACAGAGCCATAGCTCTCCGGAAACCCACTGGAGAATGCACAAAACGACCTTTATACCCCCTAGCAAACTATATCTCTCTTGAAAGGCTATCCTCACTACACAAA

Coding sequence (CDS)

ATGGCCTCACACCCCGCATATCTGGGTGCACCGCCTTTGTTCATGTTCACAACACCTAAAGAGGTAAACTTGATCCAAGTGCAAGAAAATGTATATGCTAGAAGGAAAGTCATTTCAGAACCAATACAAGTCCAAACATCTGACTCTACTCACAATGAAGATGCAACACAGGTACCAATAGATAATAGACCAACATCCAACTCTACCCATAATGAAGATGCAACACAGGTATCAATAAATGACAGAGCCATAGCTCTCCGGAAACCCACTGGAGAATGCACAAAACGACCTTTATACCCCCTAGCAAACTATATCTCTCTTGAAAGGCTATCCTCACTACACAAA

Protein sequence

MASHPAYLGAPPLFMFTTPKEVNLIQVQENVYARRKVISEPIQVQTSDSTHNEDATQVPIDNRPTSNSTHNEDATQVSINDRAIALRKPTGECTKRPLYPLANYISLERLSSLHK

Homology

[Close]

BLAST of Carg13827-RA vs. NCBI nr
Match: KAG7013828.1 (hypothetical protein SDJN02_23997, partial [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 228.0 bits (580), Expect = 4.1e-56
Identity = 115/115 (100.00%), Postives = 115/115 (100.00%), Query Frame = 0


Query: 1   MASHPAYLGAPPLFMFTTPKEVNLIQVQENVYARRKVISEPIQVQTSDSTHNEDATQVPI 60
           MASHPAYLGAPPLFMFTTPKEVNLIQVQENVYARRKVISEPIQVQTSDSTHNEDATQVPI
Sbjct: 1   MASHPAYLGAPPLFMFTTPKEVNLIQVQENVYARRKVISEPIQVQTSDSTHNEDATQVPI 60

Query: 61  DNRPTSNSTHNEDATQVSINDRAIALRKPTGECTKRPLYPLANYISLERLSSLHK 116
           DNRPTSNSTHNEDATQVSINDRAIALRKPTGECTKRPLYPLANYISLERLSSLHK
Sbjct: 61  DNRPTSNSTHNEDATQVSINDRAIALRKPTGECTKRPLYPLANYISLERLSSLHK 115

[Close]

BLAST of Carg13827-RA vs. NCBI nr
Match: RVW86031.1 (Retrovirus-related Pol polyprotein from transposon TNT 1-94 [Vitis vinifera])

HSP 1 Score: 64.3 bits (155), Expect = 7.8e-07
Identity = 40/88 (45.45%), Postives = 52/88 (59.09%), Query Frame = 0


Query: 31  VYARRKVISEPIQVQTSDSTHNEDAT---QVPIDNRPTSNSTHNEDATQVSINDRAIALR 90
           VY+R K I E  QVQ S+S    + T     P+  +P   ST + D   +   D  IA+R
Sbjct: 45  VYSREKAIPEQKQVQESNSNIGNEITVRSDPPLHTQPGETSTDSTDNLDL---DLPIAVR 104

Query: 91  KPTGECTKRPLYPLANYISLERLSSLHK 116
           K T ECT RPLYPL++Y+SL+ LSS HK
Sbjct: 105 KGTRECTNRPLYPLSHYVSLKHLSSAHK 129

[Close]

BLAST of Carg13827-RA vs. NCBI nr
Match: RVW52780.1 (Retrovirus-related Pol polyprotein from transposon RE1 [Vitis vinifera])

HSP 1 Score: 63.9 bits (154), Expect = 1.0e-06
Identity = 39/88 (44.32%), Postives = 54/88 (61.36%), Query Frame = 0


Query: 31  VYARRKVISEPIQVQTSDSTHNEDAT---QVPIDNRPTSNSTHNEDATQVSINDRAIALR 90
           VY+R KVI E  QVQ S+S    + T     P++ +P   ST + D   +++    IA+R
Sbjct: 322 VYSREKVILEQKQVQESNSDPGNEITVRSDPPLNTQPGETSTDSTDNLDLNL---PIAVR 381

Query: 91  KPTGECTKRPLYPLANYISLERLSSLHK 116
           K T ECT RPLYPL++Y+SL+ LS  HK
Sbjct: 382 KGTRECTNRPLYPLSHYVSLKHLSLAHK 406

[Close]

BLAST of Carg13827-RA vs. NCBI nr
Match: RVW27716.1 (Retrovirus-related Pol polyprotein from transposon RE1 [Vitis vinifera])

HSP 1 Score: 63.5 bits (153), Expect = 1.3e-06
Identity = 40/88 (45.45%), Postives = 52/88 (59.09%), Query Frame = 0


Query: 31  VYARRKVISEPIQVQTSDSTHNEDAT---QVPIDNRPTSNSTHNEDATQVSINDRAIALR 90
           VY+R KVI E  QVQ S+S    + T     P+  +P   ST + D   +   D  IA+R
Sbjct: 44  VYSREKVIPEQKQVQESNSDLGNEITVRSDPPLHTQPGETSTDSTDNLDL---DLPIAVR 103

Query: 91  KPTGECTKRPLYPLANYISLERLSSLHK 116
           K T ECT RPLYPL++Y+SL+ LS  HK
Sbjct: 104 KGTRECTNRPLYPLSHYVSLKHLSPAHK 128

[Close]

BLAST of Carg13827-RA vs. NCBI nr
Match: RVW90643.1 (Copia protein [Vitis vinifera])

HSP 1 Score: 62.4 bits (150), Expect = 3.0e-06
Identity = 39/88 (44.32%), Postives = 51/88 (57.95%), Query Frame = 0


Query: 31  VYARRKVISEPIQVQTSDSTHNEDAT---QVPIDNRPTSNSTHNEDATQVSINDRAIALR 90
           VY+R KVI E  QVQ S+S    + T     P+  +P   ST + D   +   D  I +R
Sbjct: 67  VYSREKVIPEQKQVQESNSDPGNEITVRSNPPLHTQPGETSTDSTDNLDL---DLPITVR 126

Query: 91  KPTGECTKRPLYPLANYISLERLSSLHK 116
           K T ECT RPLYPL++Y+SL+ LS  HK
Sbjct: 127 KGTKECTNRPLYPLSHYVSLKHLSPAHK 151

[Close]

BLAST of Carg13827-RA vs. ExPASy TrEMBL
Match: A0A438HNM6 (Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Vitis vinifera OX=29760 GN=POLX_2787 PE=4 SV=1)

HSP 1 Score: 64.3 bits (155), Expect = 3.8e-07
Identity = 40/88 (45.45%), Postives = 52/88 (59.09%), Query Frame = 0


Query: 31  VYARRKVISEPIQVQTSDSTHNEDAT---QVPIDNRPTSNSTHNEDATQVSINDRAIALR 90
           VY+R K I E  QVQ S+S    + T     P+  +P   ST + D   +   D  IA+R
Sbjct: 45  VYSREKAIPEQKQVQESNSNIGNEITVRSDPPLHTQPGETSTDSTDNLDL---DLPIAVR 104

Query: 91  KPTGECTKRPLYPLANYISLERLSSLHK 116
           K T ECT RPLYPL++Y+SL+ LSS HK
Sbjct: 105 KGTRECTNRPLYPLSHYVSLKHLSSAHK 129

[Close]

BLAST of Carg13827-RA vs. ExPASy TrEMBL
Match: A0A438EYF5 (Retrovirus-related Pol polyprotein from transposon RE1 OS=Vitis vinifera OX=29760 GN=RE1_1549 PE=4 SV=1)

HSP 1 Score: 63.9 bits (154), Expect = 4.9e-07
Identity = 39/88 (44.32%), Postives = 54/88 (61.36%), Query Frame = 0


Query: 31  VYARRKVISEPIQVQTSDSTHNEDAT---QVPIDNRPTSNSTHNEDATQVSINDRAIALR 90
           VY+R KVI E  QVQ S+S    + T     P++ +P   ST + D   +++    IA+R
Sbjct: 322 VYSREKVILEQKQVQESNSDPGNEITVRSDPPLNTQPGETSTDSTDNLDLNL---PIAVR 381

Query: 91  KPTGECTKRPLYPLANYISLERLSSLHK 116
           K T ECT RPLYPL++Y+SL+ LS  HK
Sbjct: 382 KGTRECTNRPLYPLSHYVSLKHLSLAHK 406

[Close]

BLAST of Carg13827-RA vs. ExPASy TrEMBL
Match: A0A438CWZ0 (Retrovirus-related Pol polyprotein from transposon RE1 OS=Vitis vinifera OX=29760 GN=RE1_1129 PE=4 SV=1)

HSP 1 Score: 63.5 bits (153), Expect = 6.4e-07
Identity = 40/88 (45.45%), Postives = 52/88 (59.09%), Query Frame = 0


Query: 31  VYARRKVISEPIQVQTSDSTHNEDAT---QVPIDNRPTSNSTHNEDATQVSINDRAIALR 90
           VY+R KVI E  QVQ S+S    + T     P+  +P   ST + D   +   D  IA+R
Sbjct: 44  VYSREKVIPEQKQVQESNSDLGNEITVRSDPPLHTQPGETSTDSTDNLDL---DLPIAVR 103

Query: 91  KPTGECTKRPLYPLANYISLERLSSLHK 116
           K T ECT RPLYPL++Y+SL+ LS  HK
Sbjct: 104 KGTRECTNRPLYPLSHYVSLKHLSPAHK 128

[Close]

BLAST of Carg13827-RA vs. ExPASy TrEMBL
Match: A0A438I1Q1 (Copia protein OS=Vitis vinifera OX=29760 GN=GIP_181 PE=4 SV=1)

HSP 1 Score: 62.4 bits (150), Expect = 1.4e-06
Identity = 39/88 (44.32%), Postives = 51/88 (57.95%), Query Frame = 0


Query: 31  VYARRKVISEPIQVQTSDSTHNEDAT---QVPIDNRPTSNSTHNEDATQVSINDRAIALR 90
           VY+R KVI E  QVQ S+S    + T     P+  +P   ST + D   +   D  I +R
Sbjct: 67  VYSREKVIPEQKQVQESNSDPGNEITVRSNPPLHTQPGETSTDSTDNLDL---DLPITVR 126

Query: 91  KPTGECTKRPLYPLANYISLERLSSLHK 116
           K T ECT RPLYPL++Y+SL+ LS  HK
Sbjct: 127 KGTKECTNRPLYPLSHYVSLKHLSPAHK 151

[Close]

BLAST of Carg13827-RA vs. ExPASy TrEMBL
Match: A0A438DIH3 (Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Vitis vinifera OX=29760 GN=POLX_3549 PE=4 SV=1)

HSP 1 Score: 62.4 bits (150), Expect = 1.4e-06
Identity = 39/88 (44.32%), Postives = 51/88 (57.95%), Query Frame = 0


Query: 31  VYARRKVISEPIQVQTSDSTHNEDAT---QVPIDNRPTSNSTHNEDATQVSINDRAIALR 90
           VY+R KVI E  QVQ S+S    + T     P+  +P   ST + D   +   D  I +R
Sbjct: 539 VYSREKVIPEQKQVQESNSDPGNEITVRSNPPLHTQPGETSTDSTDNLDL---DLPITVR 598

Query: 91  KPTGECTKRPLYPLANYISLERLSSLHK 116
           K T ECT RPLYPL++Y+SL+ LS  HK
Sbjct: 599 KGTKECTNRPLYPLSHYVSLKHLSPAHK 623

The following BLAST results are available for this feature:

BLAST of Carg13827-RA vs. NCBI nr


Match Name	E-value	Identity	Description
KAG7013828.1	4.1e-56	100.00	hypothetical protein SDJN02_23997, partial [Cucurbita argyrosperma subsp. argyro...	[more]
RVW86031.1	7.8e-07	45.45	Retrovirus-related Pol polyprotein from transposon TNT 1-94 [Vitis vinifera]	[more]
RVW52780.1	1.0e-06	44.32	Retrovirus-related Pol polyprotein from transposon RE1 [Vitis vinifera]	[more]
RVW27716.1	1.3e-06	45.45	Retrovirus-related Pol polyprotein from transposon RE1 [Vitis vinifera]	[more]
RVW90643.1	3.0e-06	44.32	Copia protein [Vitis vinifera]	[more]

BLAST of Carg13827-RA vs. NCBI nr


Match Name	E-value	Identity	Description

BLAST of Carg13827-RA vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A438HNM6	3.8e-07	45.45	Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Vitis vinifera OX...	[more]
A0A438EYF5	4.9e-07	44.32	Retrovirus-related Pol polyprotein from transposon RE1 OS=Vitis vinifera OX=2976...	[more]
A0A438CWZ0	6.4e-07	45.45	Retrovirus-related Pol polyprotein from transposon RE1 OS=Vitis vinifera OX=2976...	[more]
A0A438I1Q1	1.4e-06	44.32	Copia protein OS=Vitis vinifera OX=29760 GN=GIP_181 PE=4 SV=1	[more]
A0A438DIH3	1.4e-06	44.32	Retrovirus-related Pol polyprotein from transposon TNT 1-94 OS=Vitis vinifera OX...	[more]

BLAST of Carg13827-RA vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description

InterPro

Analysis Name: InterPro Annotations of Silver-seed gourd (SMH-JMG-627) v2
Date Performed: 2021-10-25


IPR Term	IPR Description	Source	Source Term	Source Description	Alignment
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 41..78

Relationships

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


Feature Name	Unique Name	Type
Carg13827	Carg13827	gene

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


Feature Name	Unique Name	Type
Carg13827-RA:2	Carg13827-RA:2	exon
Carg13827-RA:1	Carg13827-RA:1	exon

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


Feature Name	Unique Name	Type
Carg13827-RA:cds	Carg13827-RA:cds	CDS
Carg13827-RA:cds	Carg13827-RA:cds_2	CDS

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


Feature Name	Unique Name	Type
Carg13827-RA	Carg13827-RA-protein	polypeptide