Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0000495

Physical Location & Seq

Genomic Coordinates Reverse (-)

62479160 .. 62505809

Gene Structure 26650 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG369400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 414 bp

ATGTCCGCCATCATCAATAGCGTGACTAAAGCCGCCGACCGCGATGACATGCTCTGCTATGACGCCGCTGCAATTAAAGCTGGCCAGGGACGAAGTGAACTTCTTGACGAGGTCGTCCCACTGATGATGCTGGATTGCAAGCACGCTGTTCCTTTATTGATTCAAATAAAGGACTTGATTACTTCATCTCAAATTGCCAAACAACTTTTGAATGCGAGTGATAAGTGCGATTCCAGAAATTACTTGCATCTATATTTGCATTCACTATCTGAAGTAAACCCTCATGCTGGAAAAGATTTCCATGATATGCAGCTCCGCCACTTGGATTTGGGTGCTGATCTTGGAAGAAGGACCGAAGCAACTAGATCTTGCGTTCTTGGAATCAAAAGAGGAGGAGAGAAGACTTTTGATTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005770 GO:0006605 GO:0006623 GO:0006810 GO:0006886 GO:0006996 GO:0007033 GO:0007034 GO:0008104 GO:0008150 GO:0009987 GO:0012505 GO:0015031 GO:0015833 GO:0016020 GO:0016043 GO:0019899 GO:0030897 GO:0031338 GO:0031410 GO:0031982 GO:0032879 GO:0032991 GO:0033036 GO:0033043 GO:0033263 GO:0033365 GO:0034613 GO:0035542 GO:0042144 GO:0042886 GO:0043226 GO:0043227 GO:0043229 GO:0043254 GO:0044087 GO:0044422 GO:0044424 GO:0044425 GO:0044433 GO:0044440 GO:0044444 GO:0044446 GO:0044464 GO:0045184 GO:0046907 GO:0048284 GO:0050789 GO:0050794 GO:0051020 GO:0051049 GO:0051128 GO:0051179 GO:0051234 GO:0051641 GO:0051649 GO:0060627 GO:0061024 GO:0061025 GO:0065007 GO:0070727 GO:0071702 GO:0071705 GO:0071840 GO:0072594 GO:0072665 GO:0072666 GO:0097576 GO:0097708 GO:0098796 GO:0099023

KEGG Pathways

Metabolic & Signaling

ko04138 map04138

Pfam Domains

Protein Families

Clathrin

Protein Analysis

137

Amino Acids

15.15

Weight (kDa)

6.28

Isoelectric Point (pI)

42.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
TPR_Vps41	PF23556	33 - 105	2.6e-15	Vps41 TPR-like region

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000495)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G12500
fragaria_vesca	FvH4_1g10640 FvH4_1g10640 FvH4_1g10640 FvH4_1g10640 FvH4_1g10640 FvH4_1g10641 FvH4_1g10641 FvH4_1g10642 FvH4_1g10643 FvH4_1g10650 FvH4_1g10660 FvH4_1g10660 FvH4_1g10661 FvH4_2g16190
malus_domestica	MD02G1120200.v1.1 MD02G1120300.v1.1 MD15G1234400.v1.1
prunus_persica	Prupe.7G178500_v2.0.a1 Prupe.8G174900_v2.0.a1
pyrus_communis	pycom02g09370 pycom02g09380 pycom02g09390
rosa_chinensis	RchiOBHm_Chr2g0097671 RchiOBHm_Chr2g0097691 RchiOBHm_Chr2g0097731 RchiOBHm_Chr2g0097781 RchiOBHm_Chr2g0097801 RchiOBHm_Chr2g0097821 RchiOBHm_Chr6g0279811 RchiOBHm_Chr6g0279831 RchiOBHm_Chr6g0279841
rosa_laevigata	RLG00000013112 RLG00000013114 RLG00000016734 RLG00000016736 RLG00000016737 RLG00000016738
rosa_multiflora	Rmu_sc0000974.1_g000004 Rmu_sc0000974.1_g000013 Rmu_sc0000974.1_g000019 Rmu_sc0000974.1_g000025 Rmu_sc0002340.1_g000010 Rmu_sc0008442.1_g000003 Rmu_sc0008442.1_g000009 Rmu_sc0020401.1_g000002
rosa_roxburghii	Rroxscaffold_2G00140520 Rroxscaffold_2G00144540 Rroxscaffold_2G00144580 Rroxscaffold_2G00144590 Rroxscaffold_7G00188570 Rroxscaffold_7G00188590 Rroxscaffold_7G00188610
rosa_rugosa	Rorug02G0068300 Rorug02G0068400 Rorug06G0128600
rosa_samantha	Rh2AG114800 Rh2AG114900 Rh2AG115000 Rh2AG115100 Rh2BG117600 Rh2BG117800 Rh2BG117900 Rh2BG118000 Rh2CG119600 Rh2DG118500 Rh2DG118800 Rh2DG119100 Rh2DG119200 Rh2DG119300 Rh5AG369400 Rh5CG403900 Rh6AG236600 Rh6AG236700 Rh6AG236800 Rh6AG237300 Rh6BG241000 Rh6BG241200 Rh6BG241400 Rh6CG243300 Rh6CG243400 Rh6CG243600 Rh6DG234400 Rh6DG234500 Rh7AG282100
rosa_wichuraiana	Rw2G008980 Rw2G008990 Rw6G020640

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	113
AccII	CGCG	1 cut(s)	42
AciI	CCGC	5 cut(s)	6, 33, 40, 66, 316
AcoI	YGGCCR	1 cut(s)	82
AcuI	CTGAAG	1 cut(s)	291
AcyI	GRCGYC	1 cut(s)	63
AfiI	CCNNNNNNNGG	2 cut(s)	287, 322
AgsI	TTSAA	2 cut(s)	164, 211
AjnI	CCWGG	1 cut(s)	84
AluBI	AGCT	2 cut(s)	80, 313
AluI	AGCT	2 cut(s)	80, 313
AoxI	GGCC	1 cut(s)	82
ApeKI	GCWGC	2 cut(s)	68, 310
AspS9I	GGNCC	1 cut(s)	351
AvaII	GGWCC	1 cut(s)	351
BalI	TGGCCA	1 cut(s)	84
BbsI	GAAGAC	1 cut(s)	407
BbvI	GCAGC	2 cut(s)	55, 322
BccI	CCATC	1 cut(s)	17
BciT130I	CCWGG	1 cut(s)	86
BfaI	CTAG	1 cut(s)	363
BglII	AGATCT	1 cut(s)	365
BisI	GCNGC	4 cut(s)	33, 66, 69, 311
BlsI	GCNGC	4 cut(s)	34, 67, 70, 312
Bme1390I	CCNGG	1 cut(s)	86
Bme18I	GGWCC	1 cut(s)	351
BmgT120I	GGNCC	1 cut(s)	351
BmrFI	CCNGG	1 cut(s)	86
BmsI	GCATC	2 cut(s)	117, 256
BpiI	GAAGAC	1 cut(s)	407
BsaHI	GRCGYC	1 cut(s)	63
BsaJI	CCNNGG	1 cut(s)	85
Bsc4I	CCNNNNNNNGG	2 cut(s)	287, 322
BseBI	CCWGG	1 cut(s)	86
BseDI	CCNNGG	1 cut(s)	85
BseLI	CCNNNNNNNGG	2 cut(s)	287, 322
BseRI	GAGGAG	2 cut(s)	405, 408
BseXI	GCAGC	2 cut(s)	55, 322
Bsh1236I	CGCG	1 cut(s)	42
Bsh1285I	CGRYCG	1 cut(s)	40
BshFI	GGCC	1 cut(s)	84
BsiEI	CGRYCG	1 cut(s)	40
BslFI	GGGAC	2 cut(s)	101, 102
BslI	CCNNNNNNNGG	2 cut(s)	287, 322
BsmFI	GGGAC	2 cut(s)	101, 102
BsmI	GAATGC	2 cut(s)	217, 259
BsnI	GGCC	1 cut(s)	84
Bsp143I	GATC	2 cut(s)	337, 365
BspACI	CCGC	5 cut(s)	6, 33, 40, 66, 316
BspANI	GGCC	1 cut(s)	84
BspFNI	CGCG	1 cut(s)	42
BssECI	CCNNGG	1 cut(s)	85
BssMI	GATC	2 cut(s)	337, 365
BssNI	GRCGYC	1 cut(s)	63
Bst2UI	CCWGG	1 cut(s)	86
BstACI	GRCGYC	1 cut(s)	63
BstC8I	GCNNGC	3 cut(s)	82, 140, 144
BstFNI	CGCG	1 cut(s)	42
BstKTI	GATC	2 cut(s)	340, 368
BstMBI	GATC	2 cut(s)	337, 365
BstMCI	CGRYCG	1 cut(s)	40
BstMWI	GCNNNNNNNGC	1 cut(s)	77
BstNI	CCWGG	1 cut(s)	86
BstNSI	RCATGY	1 cut(s)	52
BstSCI	CCNGG	1 cut(s)	84
BstUI	CGCG	1 cut(s)	42
BstV1I	GCAGC	2 cut(s)	55, 322
BstV2I	GAAGAC	1 cut(s)	407
BstX2I	RGATCY	1 cut(s)	365
BstYI	RGATCY	1 cut(s)	365
BsuRI	GGCC	1 cut(s)	84
BtgZI	GCGATG	1 cut(s)	57
BtsIMutI	CAGTG	1 cut(s)	119
Cac8I	GCNNGC	3 cut(s)	82, 140, 144
Cfr13I	GGNCC	1 cut(s)	351
CseI	GACGC	1 cut(s)	71
CviAII	CATG	3 cut(s)	49, 284, 302
CviJI	RGCY	4 cut(s)	32, 80, 84, 313
CviKI_1	RGCY	4 cut(s)	32, 80, 84, 313
DpnI	GATC	2 cut(s)	339, 367
DpnII	GATC	2 cut(s)	337, 365
DrdI	GACNNNNNNGTC	1 cut(s)	113
DseDI	GACNNNNNNGTC	1 cut(s)	113
EaeI	YGGCCR	1 cut(s)	82
EciI	GGCGGA	1 cut(s)	305
Eco47I	GGWCC	1 cut(s)	351
Eco57I	CTGAAG	1 cut(s)	291
EcoRII	CCWGG	1 cut(s)	84
FaeI	CATG	3 cut(s)	52, 287, 305
FaiI	YATR	6 cut(s)	50, 60, 253, 285, 303, 308
FaqI	GGGAC	2 cut(s)	101, 102
FatI	CATG	3 cut(s)	48, 283, 301
Fnu4HI	GCNGC	4 cut(s)	33, 66, 69, 311
Fsp4HI	GCNGC	4 cut(s)	33, 66, 69, 311
FspBI	CTAG	1 cut(s)	363
GluI	GCNGC	4 cut(s)	33, 66, 69, 311
HaeIII	GGCC	1 cut(s)	84
HgaI	GACGC	1 cut(s)	71
Hin1I	GRCGYC	1 cut(s)	63
Hin1II	CATG	3 cut(s)	52, 287, 305
HinfI	GANTC	3 cut(s)	160, 230, 381
Hpy166II	GTNNAC	2 cut(s)	98, 277
Hpy188I	TCNGA	1 cut(s)	271
Hpy188III	TCNNGA	2 cut(s)	104, 234
Hpy8I	GTNNAC	2 cut(s)	98, 277
HpyAV	CCTTC	1 cut(s)	342
HpyCH4V	TGCA	5 cut(s)	71, 138, 247, 259, 310
HpyF10VI	GCNNNNNNNGC	1 cut(s)	77
Hsp92I	GRCGYC	1 cut(s)	63
Hsp92II	CATG	3 cut(s)	52, 287, 305
Kzo9I	GATC	2 cut(s)	337, 365
LmnI	GCTCC	1 cut(s)	318
LpnPI	CCDG	6 cut(s)	66, 71, 98, 116, 247, 273
Lsp1109I	GCAGC	2 cut(s)	55, 322
LweI	GCATC	2 cut(s)	117, 256
MaeI	CTAG	1 cut(s)	363
MaeIII	GTNAC	1 cut(s)	22
MalI	GATC	2 cut(s)	339, 367
MboI	GATC	2 cut(s)	337, 365
MboII	GAAGA	2 cut(s)	357, 412
MflI	RGATCY	1 cut(s)	365
MlsI	TGGCCA	1 cut(s)	84
MluCI	AATT	3 cut(s)	72, 192, 238
MluNI	TGGCCA	1 cut(s)	84
MnlI	CCTC	4 cut(s)	103, 291, 383, 386
Mox20I	TGGCCA	1 cut(s)	84
MscI	TGGCCA	1 cut(s)	84
MseI	TTAA	1 cut(s)	75
Msp20I	TGGCCA	1 cut(s)	84
MspA1I	CMGCKG	1 cut(s)	68
MspR9I	CCNGG	1 cut(s)	86
Mva1269I	GAATGC	2 cut(s)	217, 259
MvaI	CCWGG	1 cut(s)	86
MvnI	CGCG	1 cut(s)	42
MwoI	GCNNNNNNNGC	1 cut(s)	77
NdeII	GATC	2 cut(s)	337, 365
NlaIII	CATG	3 cut(s)	52, 287, 305
NmuCI	GTSAC	1 cut(s)	22
NspI	RCATGY	1 cut(s)	52
PctI	GAATGC	2 cut(s)	217, 259
PfeI	GAWTC	3 cut(s)	160, 230, 381
PflFI	GACNNNGTC	1 cut(s)	110
PkrI	GCNGC	4 cut(s)	34, 67, 70, 312
Psp6I	CCWGG	1 cut(s)	84
PspGI	CCWGG	1 cut(s)	84
PspPI	GGNCC	1 cut(s)	351
PsuI	RGATCY	1 cut(s)	365
PsyI	GACNNNGTC	1 cut(s)	110
SaqAI	TTAA	1 cut(s)	75
SatI	GCNGC	4 cut(s)	33, 66, 69, 311
Sau3AI	GATC	2 cut(s)	337, 365
Sau96I	GGNCC	1 cut(s)	351
ScrFI	CCNGG	1 cut(s)	86
SetI	ASST	3 cut(s)	82, 114, 315
SfaNI	GCATC	2 cut(s)	117, 256
SinI	GGWCC	1 cut(s)	351
Sse9I	AATT	3 cut(s)	72, 192, 238
SsiI	CCGC	5 cut(s)	6, 33, 40, 66, 316
SspMI	CTAG	1 cut(s)	363
StyD4I	CCNGG	1 cut(s)	84
TaqII	GACCGA	1 cut(s)	368
TasI	AATT	3 cut(s)	72, 192, 238
TauI	GCSGC	2 cut(s)	35, 68
TfiI	GAWTC	3 cut(s)	160, 230, 381
Tru1I	TTAA	1 cut(s)	75
Tru9I	TTAA	1 cut(s)	75
TscAI	CASTG	1 cut(s)	126
TseFI	GTSAC	1 cut(s)	22
TseI	GCWGC	2 cut(s)	68, 310
Tsp45I	GTSAC	1 cut(s)	22
TspDTI	ATGAA	1 cut(s)	174
TspRI	CASTG	1 cut(s)	126
Tth111I	GACNNNGTC	1 cut(s)	110
VpaK11BI	GGWCC	1 cut(s)	351
XceI	RCATGY	1 cut(s)	52
XspI	CTAG	1 cut(s)	363

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