Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0003342

Physical Location & Seq

Genomic Coordinates Reverse (-)

35545685 .. 35547070

Gene Structure 1386 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG232400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 621 bp

ATGGGAGGTTGCTGCTGTTCTTCCAGAAAAGCTCATCTCCATGGAGCACCTGTGTATTTCTATTGTTCACCAGCTTTGGAAGAGGAAGAGGTCTTAACATCCCATGATGTTGCAGCCTCTGCAATAACTGCAGGAATCCTAGTTAATCTGGATCTGGAAACATCAATACCAGACACTTACAGATCCCCTCCTACACCCCTGCCATATGATATGGTCTTTGGATGTCCACAATCAACAGATTCTGATTCTGTCAGAGAAACAAATAGTTGTAGTAGTTTTGAAACTTCACCTACATGTGGAGATCTTGAGGAATCAGACTGCAAAGTTCAAGAAAGCTCTTTGCCGATCTCACCAAAGAAGTTAGAACTTTCAAAATCCAATAAAGTAAATGTTTTAGCAGAAGAAGATGAGGATGTTTGTCCAATTTGTCTTGAAGAGTATGAAACAGAGAATCCTGATTTCACCACAAAATGCGAACACCACTATCACCTCTCCTGCATTCTTGAGTGGATGGAAAGAAGTGATGCCTGTCCTATATGTGATCAGGAACTGATATCGGACCATACCTATAGTTTGTTGCTCCTTACTGCTCCTGTGCTTGAGGTCAAAGATGCAAGCTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000209 GO:0003674 GO:0003824 GO:0004842 GO:0006464 GO:0006508 GO:0006511 GO:0006807 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010498 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019941 GO:0030163 GO:0032446 GO:0036211 GO:0043161 GO:0043170 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0051603 GO:0061630 GO:0061659 GO:0070647 GO:0071704 GO:0140096 GO:1901564 GO:1901565 GO:1901575

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-RING_2 zf-rbx1

Protein Analysis

206

Amino Acids

22.68

Weight (kDa)

4.29

Isoelectric Point (pI)

66.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-rbx1	PF12678	137 - 180	6.9e-10	RING-H2 zinc finger domain
zf-RING_2	PF13639	139 - 180	1.1e-11	Ring finger domain
zf-C3HC4_2	PF13923	140 - 180	1.9e-09	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	140 - 180	2.9e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	140 - 171	8.4e-07	RING-type zinc-finger
zf-RING_5	PF14634	140 - 182	6.4e-06	zinc-RING finger domain
zf-RING_11	PF17123	140 - 167	6.1e-06	RING-like zinc finger

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)

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Publication-ready

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Orthologous Genes (Group: OG0003342)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G00335 AT4G00335 AT4G00335
fragaria_vesca	FvH4_7g14770 FvH4_7g14770 FvH4_7g14770 FvH4_7g14770 FvH4_7g14770 FvH4_7g14770 FvH4_7g14770
malus_domestica	MD01G1066500.v1.1 MD07G1134100.v1.1
prunus_persica	Prupe.2G173400_v2.0.a1 Prupe.2G173400_v2.0.a1 Prupe.2G173400_v2.0.a1 Prupe.2G173400_v2.0.a1 Prupe.2G173400_v2.0.a1 Prupe.2G173400_v2.0.a1 Prupe.2G173400_v2.0.a1 Prupe.2G173400_v2.0.a1 Prupe.2G173400_v2.0.a1 Prupe.2G173400_v2.0.a1 Prupe.2G173400_v2.0.a1 Prupe.2G173400_v2.0.a1 Prupe.2G173400_v2.0.a1
pyrus_communis	pycom07g13170
rosa_chinensis	RchiOBHm_Chr1g0356711
rosa_laevigata	RLG00000028085
rosa_multiflora	Rmu_sc0005718.1_g000002
rosa_roxburghii	Rroxscaffold_4G00299380
rosa_rugosa	Rorug01G0251000
rosa_samantha	Rh1AG264900 Rh1BG232400 Rh1CG248600 Rh1DG260100
rosa_wichuraiana	Rw1G023440

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	2 cut(s)	159, 177
AfiI	CCNNNNNNNGG	1 cut(s)	296
AflIII	ACRYGT	1 cut(s)	293
AgsI	TTSAA	4 cut(s)	281, 329, 372, 434
AluBI	AGCT	4 cut(s)	32, 74, 336, 618
AluI	AGCT	4 cut(s)	32, 74, 336, 618
Alw21I	GWGCWC	1 cut(s)	49
AlwI	GGATC	2 cut(s)	159, 177
AlwNI	CAGNNNCTG	3 cut(s)	119, 242, 550
ApeKI	GCWGC	2 cut(s)	12, 113
AspS9I	GGNCC	1 cut(s)	559
AsuHPI	GGTGA	5 cut(s)	60, 279, 342, 454, 479
AvaII	GGWCC	1 cut(s)	559
Bbv12I	GWGCWC	1 cut(s)	49
BbvI	GCAGC	1 cut(s)	125
BccI	CCATC	1 cut(s)	505
BclI	TGATCA	1 cut(s)	541
BfaI	CTAG	2 cut(s)	140, 619
BfmI	CTRYAG	2 cut(s)	129, 568
BglII	AGATCT	1 cut(s)	301
BisI	GCNGC	2 cut(s)	13, 114
BlsI	GCNGC	2 cut(s)	14, 115
Bme18I	GGWCC	1 cut(s)	559
BmgT120I	GGNCC	1 cut(s)	559
BmsI	GCATC	2 cut(s)	514, 601
BpuEI	CTTGAG	3 cut(s)	326, 524, 620
BsaJI	CCNNGG	1 cut(s)	40
BsaXI	ACNNNNNCTCC	2 cut(s)	36, 66
Bsc4I	CCNNNNNNNGG	1 cut(s)	296
BseDI	CCNNGG	1 cut(s)	40
BseGI	GGATG	4 cut(s)	98, 227, 418, 516
BseLI	CCNNNNNNNGG	1 cut(s)	296
BseXI	GCAGC	1 cut(s)	125
BsiHKAI	GWGCWC	1 cut(s)	49
BslI	CCNNNNNNNGG	1 cut(s)	296
BsmI	GAATGC	1 cut(s)	498
Bsp1286I	GDGCHC	1 cut(s)	49
Bsp143I	GATC	5 cut(s)	151, 182, 301, 345, 541
Bsp19I	CCATGG	1 cut(s)	40
BspMAI	CTGCAG	1 cut(s)	133
BspPI	GGATC	2 cut(s)	159, 177
BssECI	CCNNGG	1 cut(s)	40
BssMI	GATC	5 cut(s)	151, 182, 301, 345, 541
BssT1I	CCWWGG	1 cut(s)	40
Bst6I	CTCTTC	3 cut(s)	75, 81, 429
BstAPI	GCANNNNNTGC	2 cut(s)	119, 128
BstC8I	GCNNGC	1 cut(s)	616
BstDSI	CCRYGG	1 cut(s)	40
BstF5I	GGATG	4 cut(s)	98, 227, 418, 516
BstKTI	GATC	5 cut(s)	154, 185, 304, 348, 544
BstMBI	GATC	5 cut(s)	151, 182, 301, 345, 541
BstMWI	GCNNNNNNNGC	2 cut(s)	119, 128
BstNSI	RCATGY	1 cut(s)	297
BstSFI	CTRYAG	2 cut(s)	129, 568
BstV1I	GCAGC	1 cut(s)	125
BstX2I	RGATCY	3 cut(s)	151, 182, 301
BstYI	RGATCY	3 cut(s)	151, 182, 301
BtgI	CCRYGG	1 cut(s)	40
BtsCI	GGATG	4 cut(s)	98, 227, 418, 516
Cac8I	GCNNGC	1 cut(s)	616
CaiI	CAGNNNCTG	3 cut(s)	119, 242, 550
Cfr13I	GGNCC	1 cut(s)	559
CviAII	CATG	3 cut(s)	41, 104, 294
CviJI	RGCY	5 cut(s)	32, 74, 116, 336, 618
CviKI_1	RGCY	5 cut(s)	32, 74, 116, 336, 618
DpnI	GATC	5 cut(s)	153, 184, 303, 347, 543
DpnII	GATC	5 cut(s)	151, 182, 301, 345, 541
Eam1104I	CTCTTC	3 cut(s)	75, 81, 429
EarI	CTCTTC	3 cut(s)	75, 81, 429
Eco130I	CCWWGG	1 cut(s)	40
Eco32I	GATATC	1 cut(s)	555
Eco47I	GGWCC	1 cut(s)	559
EcoRV	GATATC	1 cut(s)	555
EcoT14I	CCWWGG	1 cut(s)	40
ErhI	CCWWGG	1 cut(s)	40
FaeI	CATG	3 cut(s)	44, 107, 297
FatI	CATG	3 cut(s)	40, 103, 293
FauNDI	CATATG	1 cut(s)	205
FbaI	TGATCA	1 cut(s)	541
Fnu4HI	GCNGC	2 cut(s)	13, 114
FokI	GGATG	4 cut(s)	85, 234, 425, 523
Fsp4HI	GCNGC	2 cut(s)	13, 114
FspBI	CTAG	2 cut(s)	140, 619
GluI	GCNGC	2 cut(s)	13, 114
Hin1II	CATG	3 cut(s)	44, 107, 297
HinfI	GANTC	5 cut(s)	135, 239, 245, 311, 451
HphI	GGTGA	5 cut(s)	60, 279, 342, 454, 479
Hpy166II	GTNNAC	2 cut(s)	68, 227
Hpy188I	TCNGA	4 cut(s)	244, 254, 316, 559
Hpy188III	TCNNGA	9 cut(s)	24, 149, 155, 305, 329, 431, 455, 503, 545
Hpy8I	GTNNAC	2 cut(s)	68, 227
HpyCH4V	TGCA	6 cut(s)	113, 122, 131, 321, 498, 614
HpyF10VI	GCNNNNNNNGC	2 cut(s)	119, 128
Hsp92II	CATG	3 cut(s)	44, 107, 297
Ksp22I	TGATCA	1 cut(s)	541
Kzo9I	GATC	5 cut(s)	151, 182, 301, 345, 541
LmnI	GCTCC	3 cut(s)	44, 585, 595
Lsp1109I	GCAGC	1 cut(s)	125
LweI	GCATC	2 cut(s)	514, 601
MaeI	CTAG	2 cut(s)	140, 619
MalI	GATC	5 cut(s)	153, 184, 303, 347, 543
MboI	GATC	5 cut(s)	151, 182, 301, 345, 541
MboII	GAAGA	6 cut(s)	12, 92, 98, 413, 416, 446
MflI	RGATCY	3 cut(s)	151, 182, 301
MhlI	GDGCHC	1 cut(s)	49
MluCI	AATT	1 cut(s)	423
MnlI	CCTC	8 cut(s)	76, 82, 127, 198, 301, 403, 500, 595
MseI	TTAA	2 cut(s)	95, 144
MslI	CAYNNNNRTG	2 cut(s)	39, 292
Mva1269I	GAATGC	1 cut(s)	498
MwoI	GCNNNNNNNGC	2 cut(s)	119, 128
NcoI	CCATGG	1 cut(s)	40
NdeI	CATATG	1 cut(s)	205
NdeII	GATC	5 cut(s)	151, 182, 301, 345, 541
NlaIII	CATG	3 cut(s)	44, 107, 297
NspI	RCATGY	1 cut(s)	297
PciI	ACATGT	1 cut(s)	293
PctI	GAATGC	1 cut(s)	498
PfeI	GAWTC	5 cut(s)	135, 239, 245, 311, 451
PkrI	GCNGC	2 cut(s)	14, 115
PscI	ACATGT	1 cut(s)	293
PspPI	GGNCC	1 cut(s)	559
PstI	CTGCAG	1 cut(s)	133
PstNI	CAGNNNCTG	3 cut(s)	119, 242, 550
PsuI	RGATCY	3 cut(s)	151, 182, 301
RseI	CAYNNNNRTG	2 cut(s)	39, 292
SaqAI	TTAA	2 cut(s)	95, 144
SatI	GCNGC	2 cut(s)	13, 114
Sau3AI	GATC	5 cut(s)	151, 182, 301, 345, 541
Sau96I	GGNCC	1 cut(s)	559
SduI	GDGCHC	1 cut(s)	49
SfaNI	GCATC	2 cut(s)	514, 601
SfcI	CTRYAG	2 cut(s)	129, 568
SinI	GGWCC	1 cut(s)	559
SmiMI	CAYNNNNRTG	2 cut(s)	39, 292
SmlI	CTYRAG	3 cut(s)	305, 503, 599
SmoI	CTYRAG	3 cut(s)	305, 503, 599
Sse9I	AATT	1 cut(s)	423
SspMI	CTAG	2 cut(s)	140, 619
StyI	CCWWGG	1 cut(s)	40
TasI	AATT	1 cut(s)	423
TfiI	GAWTC	5 cut(s)	135, 239, 245, 311, 451
Tru1I	TTAA	2 cut(s)	95, 144
Tru9I	TTAA	2 cut(s)	95, 144
TseI	GCWGC	2 cut(s)	12, 113
TspDTI	ATGAA	1 cut(s)	456
VpaK11BI	GGWCC	1 cut(s)	559
XceI	RCATGY	1 cut(s)	297
XspI	CTAG	2 cut(s)	140, 619

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