Carg13391-RA (mRNA) Silver-seed gourd (SMH-JMG-627) v2

Overview


Name	Carg13391-RA
Type	mRNA
Organism	Cucurbita argyrosperma subsp. argyrosperma cv. SMH-JMG-627 (Silver-seed gourd (SMH-JMG-627) v2)
Description	Transcription factor UPBEAT1
Location	Carg_Chr08: 2516400 .. 2516780 (+)
Sequence length	381
RNA-Seq Expression	Carg13391-RA
Synteny	Carg13391-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.

ATGGGAGTTTACCCAGAAACCCTTTTGCTAGTTCAACTCAACATGAAAGAACCATCCCAAGATGAAACATCAATGGAAGAACAACAACAAGAACAACAAGAAGCCATAGCCAAGAGCTTCAACAGAAGAAGAAGAAGCAGCAACTCATTGATGAAGAAGAGAAGATCAAGATCATCAACTAGAATCGAGCAAAGAGTCAGCACATTAAGAAACCTCGTACCAAACATGAACAACAACAACAACAACCATGAAAGCTGTGTCGGATCATTAGAACAGCTTTTCACTCAAACAGCTGATTACATATTGTCGCTGCAAACAAGAGTGAGATTCATGAAGAATTTGGTTGATGTCTTATCCGCTTCTTCTAATGATCATGAGTGA

mRNA sequence

ATGGGAGTTTACCCAGAAACCCTTTTGCTAGTTCAACTCAACATGAAAGAACCATCCCAAGATGAAACATCAATGGAAGAACAACAACAAGAACAACAAGAAGCCATAGCCAAGAGCTTCAACAGAAGAAGAAGAAGCAGCAACTCATTGATGAAGAAGAGAAGATCAAGATCATCAACTAGAATCGAGCAAAGAGTCAGCACATTAAGAAACCTCGTACCAAACATGAACAACAACAACAACAACCATGAAAGCTGTGTCGGATCATTAGAACAGCTTTTCACTCAAACAGCTGATTACATATTGTCGCTGCAAACAAGAGTGAGATTCATGAAGAATTTGGTTGATGTCTTATCCGCTTCTTCTAATGATCATGAGTGA

Coding sequence (CDS)

ATGGGAGTTTACCCAGAAACCCTTTTGCTAGTTCAACTCAACATGAAAGAACCATCCCAAGATGAAACATCAATGGAAGAACAACAACAAGAACAACAAGAAGCCATAGCCAAGAGCTTCAACAGAAGAAGAAGAAGCAGCAACTCATTGATGAAGAAGAGAAGATCAAGATCATCAACTAGAATCGAGCAAAGAGTCAGCACATTAAGAAACCTCGTACCAAACATGAACAACAACAACAACAACCATGAAAGCTGTGTCGGATCATTAGAACAGCTTTTCACTCAAACAGCTGATTACATATTGTCGCTGCAAACAAGAGTGAGATTCATGAAGAATTTGGTTGATGTCTTATCCGCTTCTTCTAATGATCATGAGTGA

Protein sequence

MGVYPETLLLVQLNMKEPSQDETSMEEQQQEQQEAIAKSFNRRRRSSNSLMKKRRSRSSTRIEQRVSTLRNLVPNMNNNNNNHESCVGSLEQLFTQTADYILSLQTRVRFMKNLVDVLSASSNDHE

Homology

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BLAST of Carg13391-RA vs. NCBI nr
Match: KAG7025601.1 (Transcription factor UPBEAT1, partial [Cucurbita argyrosperma subsp. argyrosperma])

HSP 1 Score: 230.3 bits (586), Expect = 9.0e-57
Identity = 126/126 (100.00%), Postives = 126/126 (100.00%), Query Frame = 0


Query: 1   MGVYPETLLLVQLNMKEPSQDETSMEEQQQEQQEAIAKSFNRRRRSSNSLMKKRRSRSST 60
           MGVYPETLLLVQLNMKEPSQDETSMEEQQQEQQEAIAKSFNRRRRSSNSLMKKRRSRSST
Sbjct: 1   MGVYPETLLLVQLNMKEPSQDETSMEEQQQEQQEAIAKSFNRRRRSSNSLMKKRRSRSST 60

Query: 61  RIEQRVSTLRNLVPNMNNNNNNHESCVGSLEQLFTQTADYILSLQTRVRFMKNLVDVLSA 120
           RIEQRVSTLRNLVPNMNNNNNNHESCVGSLEQLFTQTADYILSLQTRVRFMKNLVDVLSA
Sbjct: 61  RIEQRVSTLRNLVPNMNNNNNNHESCVGSLEQLFTQTADYILSLQTRVRFMKNLVDVLSA 120

Query: 121 SSNDHE 127
           SSNDHE
Sbjct: 121 SSNDHE 126

[Close]

BLAST of Carg13391-RA vs. NCBI nr
Match: KAG6593250.1 (Transcription factor UPBEAT1, partial [Cucurbita argyrosperma subsp. sororia])

HSP 1 Score: 224.2 bits (570), Expect = 6.4e-55
Identity = 126/131 (96.18%), Postives = 126/131 (96.18%), Query Frame = 0


Query: 1   MGVYPETLLLVQLNMKEPSQDETSMEEQ-----QQEQQEAIAKSFNRRRRSSNSLMKKRR 60
           MGVYPETLLLVQLNMKEPSQDETSMEEQ     QQEQQEAIAKSFNRRRRSSNSLMKKRR
Sbjct: 1   MGVYPETLLLVQLNMKEPSQDETSMEEQQEQQEQQEQQEAIAKSFNRRRRSSNSLMKKRR 60

Query: 61  SRSSTRIEQRVSTLRNLVPNMNNNNNNHESCVGSLEQLFTQTADYILSLQTRVRFMKNLV 120
           SRSSTRIEQRVSTLRNLVPNMNNNNNNHESCVGSLEQLFTQTADYILSLQTRVRFMKNLV
Sbjct: 61  SRSSTRIEQRVSTLRNLVPNMNNNNNNHESCVGSLEQLFTQTADYILSLQTRVRFMKNLV 120

Query: 121 DVLSASSNDHE 127
           DVLSASSNDHE
Sbjct: 121 DVLSASSNDHE 131

[Close]

BLAST of Carg13391-RA vs. NCBI nr
Match: KAG6575752.1 (Transcription factor UPBEAT1, partial [Cucurbita argyrosperma subsp. sororia])

HSP 1 Score: 129.4 bits (324), Expect = 2.2e-26
Identity = 85/132 (64.39%), Postives = 101/132 (76.52%), Query Frame = 0


Query: 1   MGVYPETLLLVQLNMKEPSQD---------ETSMEEQQQEQQEAIAKSFNRRRRSSNSLM 60
           MG +P TLLL+QLNM+EP+QD         ++SMEE+Q+       KS  RRRR+S SL 
Sbjct: 1   MGAFPNTLLLLQLNMEEPTQDIIINGSILKKSSMEEEQKNN-----KSCRRRRRTSKSLA 60

Query: 61  KKRRSRSSTRIEQRVSTLRNLVPNMNNNNNNHESCVGSLEQLFTQTADYILSLQTRVRFM 120
           KK R RSSTRI QRV+TLRNLVPNMNN+N+N ++  GSLEQLFT TADYILSLQTRVRFM
Sbjct: 61  KKTR-RSSTRIVQRVTTLRNLVPNMNNDNDN-DNNDGSLEQLFTHTADYILSLQTRVRFM 120

Query: 121 KNLVDVLSASSN 124
           + LVDVLS SS+
Sbjct: 121 RTLVDVLSGSSS 125

[Close]

BLAST of Carg13391-RA vs. NCBI nr
Match: XP_031744332.1 (transcription factor UPBEAT1 [Cucumis sativus] >KGN45028.1 hypothetical protein Csa_016025 [Cucumis sativus])

HSP 1 Score: 101.7 bits (252), Expect = 4.8e-18
Identity = 80/163 (49.08%), Postives = 101/163 (61.96%), Query Frame = 0


Query: 1   MGVYPETLLLVQLNMK--EPSQD--------------------ETSMEEQQQEQQEAIAK 60
           MGV  ETLL +QLNM+  + +QD                    + SM+E++ ++  +  K
Sbjct: 1   MGVSQETLLQIQLNMEDHQTTQDRIIDIKEIRNNNSNDQSTWKKNSMKEEEVQEINSKGK 60

Query: 61  S-----------FNRRRRSSNSLMKKRRSR-----SSTRIEQRVSTLRNLVPNMNNNNNN 120
                         RRR  SNSL+ K+RSR     SS+RIEQRV+TLR+LVPN +N+N++
Sbjct: 61  DDKSTCNINTRRTTRRRSRSNSLILKKRSRRSSSSSSSRIEQRVNTLRSLVPNNDNHNHD 120

Query: 121 --HESCVGSLEQLFTQTADYILSLQTRVRFMKNLVDVLSASSN 124
              ESCVGSLEQLFTQTADYILSLQTRVR MK LVDVLS  S+
Sbjct: 121 DQDESCVGSLEQLFTQTADYILSLQTRVRLMKTLVDVLSDPSS 163

[Close]

BLAST of Carg13391-RA vs. NCBI nr
Match: KAA0046707.1 (transcription factor UPBEAT1 [Cucumis melo var. makuwa] >TYK18243.1 transcription factor UPBEAT1 [Cucumis melo var. makuwa])

HSP 1 Score: 96.7 bits (239), Expect = 1.6e-16
Identity = 80/168 (47.62%), Postives = 100/168 (59.52%), Query Frame = 0


Query: 1   MGVYPETLLLVQLNMK-----------------EPSQDET-----SMEEQ--QQEQQEAI 60
           MGV  ETLL +QLNM+                 + S D++     SM+E+  ++E QE  
Sbjct: 1   MGVSQETLLQIQLNMEDHKTTQDRIIIIKEIRNDSSNDQSIWKKKSMKEEVGEEEDQEIN 60

Query: 61  AKS-------------FNRRRRSSNSLMKKRRSR-------SSTRIEQRVSTLRNLVPNM 120
           +K                RRR  SNSL+ K+RSR       S++RIEQRV+ LRNLVPN 
Sbjct: 61  SKGKDKSTCNNINTRRTTRRRSRSNSLILKKRSRRSSSSSSSTSRIEQRVNILRNLVPNN 120

Query: 121 NNNNNNHESC-VGSLEQLFTQTADYILSLQTRVRFMKNLVDVLSASSN 124
           +N+ ++ ESC  GSLEQLFTQTADYILSLQTRVR MK LVDVLS  S+
Sbjct: 121 DNHQDDDESCTAGSLEQLFTQTADYILSLQTRVRLMKTLVDVLSDPSS 168

[Close]

BLAST of Carg13391-RA vs. ExPASy TrEMBL
Match: A0A0A0K6D9 (Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_7G407810 PE=4 SV=1)

HSP 1 Score: 101.7 bits (252), Expect = 2.3e-18
Identity = 80/163 (49.08%), Postives = 101/163 (61.96%), Query Frame = 0


Query: 1   MGVYPETLLLVQLNMK--EPSQD--------------------ETSMEEQQQEQQEAIAK 60
           MGV  ETLL +QLNM+  + +QD                    + SM+E++ ++  +  K
Sbjct: 1   MGVSQETLLQIQLNMEDHQTTQDRIIDIKEIRNNNSNDQSTWKKNSMKEEEVQEINSKGK 60

Query: 61  S-----------FNRRRRSSNSLMKKRRSR-----SSTRIEQRVSTLRNLVPNMNNNNNN 120
                         RRR  SNSL+ K+RSR     SS+RIEQRV+TLR+LVPN +N+N++
Sbjct: 61  DDKSTCNINTRRTTRRRSRSNSLILKKRSRRSSSSSSSRIEQRVNTLRSLVPNNDNHNHD 120

Query: 121 --HESCVGSLEQLFTQTADYILSLQTRVRFMKNLVDVLSASSN 124
              ESCVGSLEQLFTQTADYILSLQTRVR MK LVDVLS  S+
Sbjct: 121 DQDESCVGSLEQLFTQTADYILSLQTRVRLMKTLVDVLSDPSS 163

[Close]

BLAST of Carg13391-RA vs. ExPASy TrEMBL
Match: A0A5A7TXU1 (Transcription factor UPBEAT1 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_scaffold411G001830 PE=4 SV=1)

HSP 1 Score: 96.7 bits (239), Expect = 7.5e-17
Identity = 80/168 (47.62%), Postives = 100/168 (59.52%), Query Frame = 0


Query: 1   MGVYPETLLLVQLNMK-----------------EPSQDET-----SMEEQ--QQEQQEAI 60
           MGV  ETLL +QLNM+                 + S D++     SM+E+  ++E QE  
Sbjct: 1   MGVSQETLLQIQLNMEDHKTTQDRIIIIKEIRNDSSNDQSIWKKKSMKEEVGEEEDQEIN 60

Query: 61  AKS-------------FNRRRRSSNSLMKKRRSR-------SSTRIEQRVSTLRNLVPNM 120
           +K                RRR  SNSL+ K+RSR       S++RIEQRV+ LRNLVPN 
Sbjct: 61  SKGKDKSTCNNINTRRTTRRRSRSNSLILKKRSRRSSSSSSSTSRIEQRVNILRNLVPNN 120

Query: 121 NNNNNNHESC-VGSLEQLFTQTADYILSLQTRVRFMKNLVDVLSASSN 124
           +N+ ++ ESC  GSLEQLFTQTADYILSLQTRVR MK LVDVLS  S+
Sbjct: 121 DNHQDDDESCTAGSLEQLFTQTADYILSLQTRVRLMKTLVDVLSDPSS 168

[Close]

BLAST of Carg13391-RA vs. ExPASy TrEMBL
Match: A0A7N1A546 (Uncharacterized protein OS=Kalanchoe fedtschenkoi OX=63787 PE=4 SV=1)

HSP 1 Score: 55.8 bits (133), Expect = 1.5e-04
Identity = 37/84 (44.05%), Postives = 56/84 (66.67%), Query Frame = 0


Query: 45  RSSNSLMKKRRSRSSTR---IEQRVSTLRNLVPNMNNNNNNHESCVGSLEQLFTQTADYI 104
           +  N L ++R S  STR     +RV TL+ L+P      N+HE CVG+ + LFT+TADYI
Sbjct: 33  KMKNKLKRRRSSLPSTRAVVAGRRVKTLKELIP------NSHE-CVGA-DALFTKTADYI 92

Query: 105 LSLQTRVRFMKNLVDVLSASSNDH 126
           L LQ +V+ M+ ++D+LS++S+ H
Sbjct: 93  LLLQLKVQVMQTMIDLLSSNSDGH 108

[Close]

BLAST of Carg13391-RA vs. ExPASy TrEMBL
Match: A0A445BD20 (Uncharacterized protein OS=Arachis hypogaea OX=3818 GN=Ahy_A09g041547 PE=4 SV=1)

HSP 1 Score: 54.7 bits (130), Expect = 3.3e-04
Identity = 42/93 (45.16%), Postives = 55/93 (59.14%), Query Frame = 0


Query: 43  RRRSSNSLMKK----RRSR-----SSTRIEQRVSTLRNLVPNMNNNNNNHESCVGSLEQL 102
           R R+   LMK+    RRSR     S+  I+ RV TL+NL+PN +NN          L+ L
Sbjct: 40  RTRTRRVLMKRIGGSRRSRGRGAKSNNGIQSRVRTLKNLIPNSDNNM--------GLDGL 99

Query: 103 FTQTADYILSLQTRVRFMKNLVDVLSASSNDHE 127
           F +TA+YILSLQ RVR M+ +V VL+ S  D E
Sbjct: 100 FRETANYILSLQNRVRVMQVMVKVLTGSGGDDE 124

[Close]

BLAST of Carg13391-RA vs. ExPASy TrEMBL
Match: A0A444XT61 (Uncharacterized protein OS=Arachis hypogaea OX=3818 GN=Ahy_B09g099168 PE=4 SV=1)

HSP 1 Score: 54.7 bits (130), Expect = 3.3e-04
Identity = 42/93 (45.16%), Postives = 55/93 (59.14%), Query Frame = 0


Query: 43  RRRSSNSLMKK----RRSR-----SSTRIEQRVSTLRNLVPNMNNNNNNHESCVGSLEQL 102
           R R+   LMK+    RRSR     S+  I+ RV TL+NL+PN +NN          L+ L
Sbjct: 40  RTRTRRVLMKRIGGSRRSRGRGTKSNNGIQSRVRTLKNLIPNSDNNM--------GLDGL 99

Query: 103 FTQTADYILSLQTRVRFMKNLVDVLSASSNDHE 127
           F +TA+YILSLQ RVR M+ +V VL+ S  D E
Sbjct: 100 FRETANYILSLQNRVRVMQVMVKVLTGSGGDDE 124

[Close]

BLAST of Carg13391-RA vs. TAIR 10
Match: AT2G47270.1 (sequence-specific DNA binding transcription factors;transcription regulators )

HSP 1 Score: 43.5 bits (101), Expect = 1.5e-04
Identity = 34/91 (37.36%), Postives = 54/91 (59.34%), Query Frame = 0


Query: 42  RRRRSSNSLMKK-----RRSRSSTR-----IEQRVSTLRNLVPNMNNNNNNHESCVGSLE 101
           RR+R+  +L+KK     R+S  ++R     I +RV TL+ LVPN   +          L+
Sbjct: 18  RRQRARRALVKKIMIRPRKSVEASRRPCRAIHRRVKTLKELVPNTKTSE--------GLD 77

Query: 102 QLFTQTADYILSLQTRVRFMKNLVDVLSASS 123
            LF QTADYIL+L+ +V+ M+ +V VL+ ++
Sbjct: 78  GLFRQTADYILALEMKVKVMQTMVQVLTETN 100

The following BLAST results are available for this feature:

BLAST of Carg13391-RA vs. NCBI nr


Match Name	E-value	Identity	Description
KAG7025601.1	9.0e-57	100.00	Transcription factor UPBEAT1, partial [Cucurbita argyrosperma subsp. argyrosperm...	[more]
KAG6593250.1	6.4e-55	96.18	Transcription factor UPBEAT1, partial [Cucurbita argyrosperma subsp. sororia]	[more]
KAG6575752.1	2.2e-26	64.39	Transcription factor UPBEAT1, partial [Cucurbita argyrosperma subsp. sororia]	[more]
XP_031744332.1	4.8e-18	49.08	transcription factor UPBEAT1 [Cucumis sativus] >KGN45028.1 hypothetical protein ...	[more]
KAA0046707.1	1.6e-16	47.62	transcription factor UPBEAT1 [Cucumis melo var. makuwa] >TYK18243.1 transcriptio...	[more]

BLAST of Carg13391-RA vs. NCBI nr


Match Name	E-value	Identity	Description

BLAST of Carg13391-RA vs. ExPASy TrEMBL


Match Name	E-value	Identity	Description
A0A0A0K6D9	2.3e-18	49.08	Uncharacterized protein OS=Cucumis sativus OX=3659 GN=Csa_7G407810 PE=4 SV=1	[more]
A0A5A7TXU1	7.5e-17	47.62	Transcription factor UPBEAT1 OS=Cucumis melo var. makuwa OX=1194695 GN=E5676_sca...	[more]
A0A7N1A546	1.5e-04	44.05	Uncharacterized protein OS=Kalanchoe fedtschenkoi OX=63787 PE=4 SV=1	[more]
A0A445BD20	3.3e-04	45.16	Uncharacterized protein OS=Arachis hypogaea OX=3818 GN=Ahy_A09g041547 PE=4 SV=1	[more]
A0A444XT61	3.3e-04	45.16	Uncharacterized protein OS=Arachis hypogaea OX=3818 GN=Ahy_B09g099168 PE=4 SV=1	[more]

BLAST of Carg13391-RA vs. TAIR 10


Match Name	E-value	Identity	Description
AT2G47270.1	1.5e-04	37.36	sequence-specific DNA binding transcription factors;transcription regulators	[more]

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
IPR036638	Helix-loop-helix DNA-binding domain superfamily	GENE3D	4.10.280.10		coord: 41..116 e-value: 3.4E-5 score: 25.9
IPR036638	Helix-loop-helix DNA-binding domain superfamily	SUPERFAMILY	47459	HLH, helix-loop-helix DNA-binding domain	coord: 41..119
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 16..64
None	No IPR available	MOBIDB_LITE	mobidb-lite	disorder_prediction	coord: 16..36
None	No IPR available	PANTHER	PTHR33124:SF39	TRANSCRIPTION FACTOR UPBEAT1	coord: 23..120
IPR044660	Transcription factor IBH1-like	PANTHER	PTHR33124	TRANSCRIPTION FACTOR IBH1-LIKE 1	coord: 23..120

Relationships

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


Feature Name	Unique Name	Type
Carg13391	Carg13391	gene

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


Feature Name	Unique Name	Type
Carg13391-RA:1	Carg13391-RA:1	exon

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


Feature Name	Unique Name	Type
Carg13391-RA:cds	Carg13391-RA:cds	CDS

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


Feature Name	Unique Name	Type
Carg13391-RA	Carg13391-RA-protein	polypeptide

GO Annotation

GO Assignments

This mRNA is annotated with the following GO terms.

Category	Term Accession	Term Name
biological_process	GO:0006355	regulation of transcription, DNA-templated
molecular_function	GO:0046983	protein dimerization activity