Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5B

Orthogroup ID

OG0010547

Physical Location & Seq

Genomic Coordinates Forward (+)

62561970 .. 62562476

Gene Structure 507 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5BG391200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 507 bp

ATGGCAATAGAATCAAACTTTTCAACCAATGCCTCAAGCAGTAGAAATCAAGTCCTCCATGGCAAAGCTTCAACAACAGATGGCCACACAAAGGTTGAAGGTGGTGAATGCTGTATTATCTTGCCAAAGTCATGTGTTGCTCGTATCGCTCAACTCACTCGTGATCTTGGTCACAATACCAATGGTCAAACAGTAGAGTGGCTCTTACAACAAGCTGAACCATTTATTATCGCTGCCACTGGGAAAAATGTCTCCCCGATTAATACGCCTTCAACTCTAGTTGCTGTGGATTTGGAGGAGAATGCTATTAGTCTTGAAGACAAAGATTTGGTTAAGAAGCACATTATAGGTGACCAACCGATGCTACCTGCTTATGACTATTATTTGAGGTTGGTTACACAAAACTATGAAATTGCTGACTTTTCTGCCAATGATGTTGCAATAGATGTAGGGATCCAAACTCAGGAAGAAACCAAGAATCAGGATGGGGAAGAAAGACTAGAATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0001101 GO:0003006 GO:0003674 GO:0003700 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006259 GO:0006260 GO:0006261 GO:0006355 GO:0006725 GO:0006807 GO:0007049 GO:0007275 GO:0007623 GO:0008150 GO:0008152 GO:0008283 GO:0009058 GO:0009059 GO:0009719 GO:0009725 GO:0009735 GO:0009737 GO:0009739 GO:0009791 GO:0009889 GO:0009908 GO:0009962 GO:0009987 GO:0010029 GO:0010033 GO:0010229 GO:0010252 GO:0010468 GO:0010556 GO:0019219 GO:0019222 GO:0022402 GO:0022414 GO:0031323 GO:0031326 GO:0031347 GO:0031537 GO:0031540 GO:0032501 GO:0032502 GO:0033993 GO:0034641 GO:0034645 GO:0042023 GO:0042221 GO:0042592 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044424 GO:0044464 GO:0044786 GO:0046483 GO:0048367 GO:0048438 GO:0048467 GO:0048511 GO:0048580 GO:0048583 GO:0048608 GO:0048731 GO:0048856 GO:0048878 GO:0050789 GO:0050793 GO:0050794 GO:0050896 GO:0051171 GO:0051239 GO:0051252 GO:0060255 GO:0061458 GO:0065007 GO:0065008 GO:0071704 GO:0080090 GO:0080134 GO:0090304 GO:0090567 GO:0097305 GO:0140110 GO:1900140 GO:1901360 GO:1901576 GO:1901700 GO:1903506 GO:2000026 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

TCP

Protein Analysis

168

Amino Acids

18.4

Weight (kDa)

4.65

Isoelectric Point (pI)

40.13

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TCP	PF03634	24 - 104	1.8e-12	TCP family transcription factor

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0010547)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g31470 FvH4_3g31480
rosa_laevigata	RLG00000035198 RLG00000035199
rosa_multiflora	Rmu_sc0000367.1_g000023 Rmu_sc0000367.1_g000029 Rmu_sc0000367.1_g000031 Rmu_sc0000367.1_g000032 Rmu_sc0000367.1_g000033
rosa_roxburghii	Rroxscaffold_1G00022400 Rroxscaffold_1G00022420
rosa_rugosa	Rorug05G0312200
rosa_samantha	Rh5AG380200 Rh5BG391200 Rh5BG391300 Rh5CG415100 Rh5CG415200 Rh5DG405900 Rh5DG406000
rosa_wichuraiana	Rw5G035780 Rw5G035790

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	376
AclWI	GGATC	2 cut(s)	448, 461
AcoI	YGGCCR	1 cut(s)	82
AfiI	CCNNNNNNNGG	2 cut(s)	91, 463
AgsI	TTSAA	5 cut(s)	24, 72, 98, 273, 317
AluBI	AGCT	2 cut(s)	68, 215
AluI	AGCT	2 cut(s)	68, 215
Alw26I	GTCTC	1 cut(s)	256
AlwI	GGATC	2 cut(s)	448, 461
AoxI	GGCC	1 cut(s)	82
ApeKI	GCWGC	1 cut(s)	233
AseI	ATTAAT	1 cut(s)	261
AsuHPI	GGTGA	2 cut(s)	116, 362
BalI	TGGCCA	1 cut(s)	84
BamHI	GGATCC	1 cut(s)	453
BauI	CACGAG	1 cut(s)	159
BbsI	GAAGAC	1 cut(s)	324
BbvI	GCAGC	1 cut(s)	220
BccI	CCATC	2 cut(s)	74, 479
BcoDI	GTCTC	1 cut(s)	256
BfaI	CTAG	2 cut(s)	278, 500
BfuAI	ACCTGC	1 cut(s)	376
BisI	GCNGC	1 cut(s)	234
BlsI	GCNGC	1 cut(s)	235
BmiI	GGNNCC	1 cut(s)	455
BmrI	ACTGGG	1 cut(s)	249
BmsI	GCATC	1 cut(s)	351
BmuI	ACTGGG	1 cut(s)	249
BpiI	GAAGAC	1 cut(s)	324
BpuEI	CTTGAG	1 cut(s)	19
BsaJI	CCNNGG	1 cut(s)	58
Bsc4I	CCNNNNNNNGG	2 cut(s)	91, 463
Bse1I	ACTGG	1 cut(s)	244
BseDI	CCNNGG	1 cut(s)	58
BseGI	GGATG	1 cut(s)	490
BseLI	CCNNNNNNNGG	2 cut(s)	91, 463
BseMII	CTCAG	1 cut(s)	476
BseNI	ACTGG	1 cut(s)	244
BseRI	GAGGAG	1 cut(s)	311
BseXI	GCAGC	1 cut(s)	220
BshFI	GGCC	1 cut(s)	84
BslI	CCNNNNNNNGG	2 cut(s)	91, 463
BsmAI	GTCTC	1 cut(s)	256
BsmI	GAATGC	2 cut(s)	113, 307
BsnI	GGCC	1 cut(s)	84
Bsp143I	GATC	2 cut(s)	163, 453
Bsp19I	CCATGG	1 cut(s)	58
BspANI	GGCC	1 cut(s)	84
BspCNI	CTCAG	1 cut(s)	475
BspLI	GGNNCC	1 cut(s)	455
BspMI	ACCTGC	1 cut(s)	376
BspPI	GGATC	2 cut(s)	448, 461
BsrI	ACTGG	1 cut(s)	244
BssECI	CCNNGG	1 cut(s)	58
BssMI	GATC	2 cut(s)	163, 453
BssSI	CACGAG	1 cut(s)	159
BssT1I	CCWWGG	1 cut(s)	58
Bst2BI	CACGAG	1 cut(s)	159
Bst4CI	ACNGT	1 cut(s)	193
BstDEI	CTNAG	1 cut(s)	462
BstDSI	CCRYGG	1 cut(s)	58
BstEII	GGTNACC	1 cut(s)	350
BstF5I	GGATG	1 cut(s)	490
BstKTI	GATC	2 cut(s)	166, 456
BstMAI	GTCTC	1 cut(s)	256
BstMBI	GATC	2 cut(s)	163, 453
BstMWI	GCNNNNNNNGC	1 cut(s)	146
BstPI	GGTNACC	1 cut(s)	350
BstV1I	GCAGC	1 cut(s)	220
BstV2I	GAAGAC	1 cut(s)	324
BstX2I	RGATCY	1 cut(s)	453
BstYI	RGATCY	1 cut(s)	453
BsuRI	GGCC	1 cut(s)	84
BtgI	CCRYGG	1 cut(s)	58
BtsCI	GGATG	1 cut(s)	490
BtsIMutI	CAGTG	1 cut(s)	237
BveI	ACCTGC	1 cut(s)	376
CviAII	CATG	2 cut(s)	59, 132
CviJI	RGCY	4 cut(s)	68, 84, 202, 215
CviKI_1	RGCY	4 cut(s)	68, 84, 202, 215
DdeI	CTNAG	1 cut(s)	462
DpnI	GATC	2 cut(s)	165, 455
DpnII	GATC	2 cut(s)	163, 453
EaeI	YGGCCR	1 cut(s)	82
Eco130I	CCWWGG	1 cut(s)	58
Eco91I	GGTNACC	1 cut(s)	350
EcoO65I	GGTNACC	1 cut(s)	350
EcoT14I	CCWWGG	1 cut(s)	58
ErhI	CCWWGG	1 cut(s)	58
FaeI	CATG	2 cut(s)	62, 135
FaiI	YATR	5 cut(s)	60, 133, 347, 375, 408
FatI	CATG	2 cut(s)	58, 131
Fnu4HI	GCNGC	1 cut(s)	234
FokI	GGATG	1 cut(s)	497
Fsp4HI	GCNGC	1 cut(s)	234
FspBI	CTAG	2 cut(s)	278, 500
GluI	GCNGC	1 cut(s)	234
HaeIII	GGCC	1 cut(s)	84
Hin1II	CATG	2 cut(s)	62, 135
HindIII	AAGCTT	1 cut(s)	66
HinfI	GANTC	2 cut(s)	11, 478
HphI	GGTGA	2 cut(s)	116, 362
Hpy188III	TCNNGA	4 cut(s)	161, 314, 464, 482
HpyAV	CCTTC	2 cut(s)	92, 279
HpyCH4III	ACNGT	1 cut(s)	193
HpyCH4V	TGCA	1 cut(s)	440
HpyF10VI	GCNNNNNNNGC	1 cut(s)	146
HpyF3I	CTNAG	1 cut(s)	462
Hsp92II	CATG	2 cut(s)	62, 135
Kzo9I	GATC	2 cut(s)	163, 453
LpnPI	CCDG	4 cut(s)	225, 381, 449, 467
Lsp1109I	GCAGC	1 cut(s)	220
LweI	GCATC	1 cut(s)	351
MaeI	CTAG	2 cut(s)	278, 500
MaeIII	GTNAC	3 cut(s)	170, 350, 394
MalI	GATC	2 cut(s)	165, 455
MboI	GATC	2 cut(s)	163, 453
MboII	GAAGA	3 cut(s)	329, 479, 503
MflI	RGATCY	1 cut(s)	453
MlsI	TGGCCA	1 cut(s)	84
MluCI	AATT	1 cut(s)	411
MluNI	TGGCCA	1 cut(s)	84
MnlI	CCTC	4 cut(s)	43, 65, 289, 381
Mox20I	TGGCCA	1 cut(s)	84
MscI	TGGCCA	1 cut(s)	84
MseI	TTAA	2 cut(s)	261, 333
Msp20I	TGGCCA	1 cut(s)	84
Mva1269I	GAATGC	2 cut(s)	113, 307
MwoI	GCNNNNNNNGC	1 cut(s)	146
NcoI	CCATGG	1 cut(s)	58
NdeII	GATC	2 cut(s)	163, 453
NlaIII	CATG	2 cut(s)	62, 135
NlaIV	GGNNCC	1 cut(s)	455
NmuCI	GTSAC	2 cut(s)	170, 350
PctI	GAATGC	2 cut(s)	113, 307
PfeI	GAWTC	2 cut(s)	11, 478
PkrI	GCNGC	1 cut(s)	235
PshBI	ATTAAT	1 cut(s)	261
PspEI	GGTNACC	1 cut(s)	350
PspN4I	GGNNCC	1 cut(s)	455
PsuI	RGATCY	1 cut(s)	453
SaqAI	TTAA	2 cut(s)	261, 333
SatI	GCNGC	1 cut(s)	234
Sau3AI	GATC	2 cut(s)	163, 453
SetI	ASST	7 cut(s)	70, 96, 103, 217, 352, 370, 392
SfaNI	GCATC	1 cut(s)	351
SmlI	CTYRAG	1 cut(s)	34
SmoI	CTYRAG	1 cut(s)	34
Sse9I	AATT	1 cut(s)	411
SspMI	CTAG	2 cut(s)	278, 500
StyI	CCWWGG	1 cut(s)	58
TaaI	ACNGT	1 cut(s)	193
TasI	AATT	1 cut(s)	411
TfiI	GAWTC	2 cut(s)	11, 478
Tru1I	TTAA	2 cut(s)	261, 333
Tru9I	TTAA	2 cut(s)	261, 333
TscAI	CASTG	1 cut(s)	244
TseFI	GTSAC	2 cut(s)	170, 350
TseI	GCWGC	1 cut(s)	233
Tsp45I	GTSAC	2 cut(s)	170, 350
TspDTI	ATGAA	1 cut(s)	423
TspRI	CASTG	1 cut(s)	244
VspI	ATTAAT	1 cut(s)	261
XspI	CTAG	2 cut(s)	278, 500

Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.