Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr6C

Orthogroup ID

OG0016750

Physical Location & Seq

Genomic Coordinates Reverse (-)

12650850 .. 12659300

Gene Structure 8451 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh6CG110100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 606 bp

ATGCACGAAGACAATGAAGCTGGTTTTGAATGCAACATTTGTCTTGCCTTAGCTGAGGACCCAGTCATAACACTCTGTGGTCACCTTTACTGTTGGTCTTGTTTGGTCAAATGGCTCTTCAGTTCACAGTATTCCAACAATGAGTGTCCGATTTGCAAGTCCGATATCGAGTTCAGCAAATTAATCTTTTCTTATGGAAAGTTGAAATCGTCCGAATCCAAACCGATATCTTGGTTTGAATGTAACATTTGCTCTGGATTAGCTCAAGATCCAATTATAACACTCTGTGGCCACCTCTATTGTTGGCCTTGCATCTATAAATGGCTTTCCAAGTGGAATTCAAATTCCAATTGTTGGGTTTGTAATGCTGTCATAGAGGAGAACAAATTGATCCCTCTTTATGGAAAAGGGATAAAATCGTCATCACATGATTCGGACTCAAGCTTTCGAGCTGTTGCACCTGCAGGCGCTGGCAGTCTTGCTTCAACTGCCAAGGGTTTCAGTGGAATTGGGAAAGAACACATAAAGGAGAGGATTTCATCGGGTTTGAACTTTGAAATGGCTGATATGTTTAGGGTGCAAGTGGACATTAAAACCCGTGTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004842 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005783 GO:0005789 GO:0006464 GO:0006508 GO:0006511 GO:0006515 GO:0006807 GO:0006810 GO:0006886 GO:0006950 GO:0008104 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009987 GO:0010033 GO:0010243 GO:0010498 GO:0012505 GO:0015031 GO:0015833 GO:0016020 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019899 GO:0019941 GO:0030163 GO:0031984 GO:0032446 GO:0032527 GO:0032991 GO:0033036 GO:0033554 GO:0034613 GO:0034976 GO:0035966 GO:0035967 GO:0036211 GO:0036503 GO:0036513 GO:0042175 GO:0042221 GO:0042886 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044390 GO:0044422 GO:0044424 GO:0044425 GO:0044432 GO:0044444 GO:0044446 GO:0044464 GO:0045184 GO:0046907 GO:0050896 GO:0051179 GO:0051234 GO:0051603 GO:0051641 GO:0051649 GO:0051716 GO:0051788 GO:0070647 GO:0070727 GO:0070887 GO:0071218 GO:0071310 GO:0071702 GO:0071704 GO:0071705 GO:0071712 GO:0098796 GO:0098827 GO:0140096 GO:1901564 GO:1901565 GO:1901575 GO:1901698

KEGG Pathways

Metabolic & Signaling

ko04141 map04141

Pfam Domains

Protein Families

zf-C3HC4 zf-C3HC4_3

Protein Analysis

201

Amino Acids

22.4

Weight (kDa)

6.2

Isoelectric Point (pI)

48.04

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	10 - 57	1.1e-09	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	10 - 52	1.7e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	10 - 53	1.5e-08	Ring finger domain
zf-RING_5	PF14634	10 - 53	1.2e-07	zinc-RING finger domain
zf-C3HC4	PF00097	11 - 52	4.1e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	11 - 50	2.8e-09	RING-type zinc-finger
zf-C3HC4_4	PF15227	11 - 52	3.1e-06	zinc finger of C3HC4-type, RING
zf-C3HC4_3	PF13920	80 - 126	2.1e-06	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	80 - 121	1.7e-06	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	80 - 122	7.5e-06	Ring finger domain
zf-RING_5	PF14634	80 - 122	8e-06	zinc-RING finger domain
zf-C3HC4	PF00097	81 - 121	2.5e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	81 - 115	4.6e-06	RING-type zinc-finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0016750)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_2g07980
malus_domestica	MD05G1072100.v1.1 MD10G1082500.v1.1
rosa_chinensis	RchiOBHm_Chr6g0262431
rosa_laevigata	RLG00000014429
rosa_multiflora	Rmu_co8450695.1_g000001 Rmu_sc0010965.1_g000002 Rmu_sc0018995.1_g000001
rosa_roxburghii	Rroxscaffold_177G00434460 Rroxscaffold_7G00205270
rosa_rugosa	Rorug05G0597200
rosa_samantha	Rh6BG112000 Rh6CG110100 Rh6DG099700

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	278
AarI	CACCTGC	1 cut(s)	469
Acc36I	ACCTGC	1 cut(s)	469
AccB7I	CCANNNNNTGG	1 cut(s)	354
AclWI	GGATC	2 cut(s)	263, 385
AcoI	YGGCCR	1 cut(s)	289
AcsI	RAATTY	2 cut(s)	337, 343
AcuI	CTGAAG	1 cut(s)	103
AdeI	CACNNNGTG	2 cut(s)	77, 287
AfiI	CCNNNNNNNGG	2 cut(s)	354, 401
AgsI	TTSAA	7 cut(s)	29, 205, 239, 342, 486, 550, 557
AluBI	AGCT	5 cut(s)	20, 53, 263, 444, 452
AluI	AGCT	5 cut(s)	20, 53, 263, 444, 452
AlwI	GGATC	2 cut(s)	263, 385
AlwNI	CAGNNNCTG	1 cut(s)	470
AoxI	GGCC	2 cut(s)	289, 305
ApoI	RAATTY	2 cut(s)	337, 343
AseI	ATTAAT	1 cut(s)	182
AspLEI	GCGC	1 cut(s)	470
AspS9I	GGNCC	1 cut(s)	58
AsuHPI	GGTGA	1 cut(s)	74
AvaII	GGWCC	1 cut(s)	58
BalI	TGGCCA	1 cut(s)	291
BbsI	GAAGAC	1 cut(s)	15
BbvCI	CCTCAGC	1 cut(s)	54
BfmI	CTRYAG	1 cut(s)	462
BfoI	RGCGCY	1 cut(s)	471
BfuAI	ACCTGC	1 cut(s)	469
Bme18I	GGWCC	1 cut(s)	58
BmgT120I	GGNCC	1 cut(s)	58
BmiI	GGNNCC	1 cut(s)	60
BmrI	ACTGGG	1 cut(s)	56
BmsI	GCATC	1 cut(s)	321
BmuI	ACTGGG	1 cut(s)	56
BpiI	GAAGAC	1 cut(s)	15
Bpu10I	CCTNAGC	2 cut(s)	49, 54
BpuEI	CTTGAG	2 cut(s)	249, 424
BsaJI	CCNNGG	1 cut(s)	492
Bsc4I	CCNNNNNNNGG	2 cut(s)	354, 401
Bse1I	ACTGG	1 cut(s)	62
BseDI	CCNNGG	1 cut(s)	492
BseLI	CCNNNNNNNGG	2 cut(s)	354, 401
BseMII	CTCAG	1 cut(s)	45
BseNI	ACTGG	1 cut(s)	62
BseRI	GAGGAG	1 cut(s)	392
BshFI	GGCC	2 cut(s)	291, 307
BslI	CCNNNNNNNGG	2 cut(s)	354, 401
BsmI	GAATGC	1 cut(s)	35
BsnI	GGCC	2 cut(s)	291, 307
Bsp143I	GATC	2 cut(s)	268, 390
BspANI	GGCC	2 cut(s)	291, 307
BspCNI	CTCAG	1 cut(s)	46
BspLI	GGNNCC	1 cut(s)	60
BspMAI	CTGCAG	1 cut(s)	466
BspMI	ACCTGC	1 cut(s)	469
BspPI	GGATC	2 cut(s)	263, 385
BspQI	GCTCTTC	1 cut(s)	122
BsrI	ACTGG	1 cut(s)	62
BssECI	CCNNGG	1 cut(s)	492
BssMI	GATC	2 cut(s)	268, 390
BssT1I	CCWWGG	1 cut(s)	492
Bst4CI	ACNGT	2 cut(s)	92, 129
Bst6I	CTCTTC	1 cut(s)	122
BstC8I	GCNNGC	2 cut(s)	466, 472
BstDEI	CTNAG	2 cut(s)	49, 54
BstEII	GGTNACC	1 cut(s)	80
BstH2I	RGCGCY	1 cut(s)	471
BstHHI	GCGC	1 cut(s)	470
BstKTI	GATC	2 cut(s)	271, 393
BstMBI	GATC	2 cut(s)	268, 390
BstMWI	GCNNNNNNNGC	1 cut(s)	488
BstPI	GGTNACC	1 cut(s)	80
BstSFI	CTRYAG	1 cut(s)	462
BstV2I	GAAGAC	1 cut(s)	15
BstX2I	RGATCY	1 cut(s)	268
BstYI	RGATCY	1 cut(s)	268
BsuRI	GGCC	2 cut(s)	291, 307
BtsIMutI	CAGTG	1 cut(s)	508
BveI	ACCTGC	1 cut(s)	469
Cac8I	GCNNGC	2 cut(s)	466, 472
CaiI	CAGNNNCTG	1 cut(s)	470
CfoI	GCGC	1 cut(s)	470
Cfr13I	GGNCC	1 cut(s)	58
CspCI	CAANNNNNGTGG	2 cut(s)	281, 316
CviAII	CATG	1 cut(s)	428
DdeI	CTNAG	2 cut(s)	49, 54
DpnI	GATC	2 cut(s)	270, 392
DpnII	GATC	2 cut(s)	268, 390
DraIII	CACNNNGTG	2 cut(s)	77, 287
EaeI	YGGCCR	1 cut(s)	289
Eam1104I	CTCTTC	1 cut(s)	122
EarI	CTCTTC	1 cut(s)	122
Eco130I	CCWWGG	1 cut(s)	492
Eco32I	GATATC	2 cut(s)	166, 228
Eco47I	GGWCC	1 cut(s)	58
Eco57I	CTGAAG	1 cut(s)	103
Eco91I	GGTNACC	1 cut(s)	80
EcoO109I	RGGNCCY	1 cut(s)	58
EcoO65I	GGTNACC	1 cut(s)	80
EcoRI	GAATTC	1 cut(s)	337
EcoRV	GATATC	2 cut(s)	166, 228
EcoT14I	CCWWGG	1 cut(s)	492
ErhI	CCWWGG	1 cut(s)	492
FaeI	CATG	1 cut(s)	431
FaiI	YATR	9 cut(s)	68, 195, 278, 318, 374, 402, 429, 524, 569
FatI	CATG	1 cut(s)	427
GlaI	GCGC	1 cut(s)	469
HaeII	RGCGCY	1 cut(s)	471
HaeIII	GGCC	2 cut(s)	291, 307
HhaI	GCGC	1 cut(s)	470
Hin1II	CATG	1 cut(s)	431
Hin6I	GCGC	1 cut(s)	468
HinP1I	GCGC	1 cut(s)	468
HindIII	AAGCTT	1 cut(s)	442
HinfI	GANTC	3 cut(s)	215, 431, 437
HphI	GGTGA	1 cut(s)	74
Hpy166II	GTNNAC	2 cut(s)	125, 586
Hpy188I	TCNGA	4 cut(s)	150, 163, 214, 436
Hpy188III	TCNNGA	2 cut(s)	255, 266
Hpy8I	GTNNAC	2 cut(s)	125, 586
HpyCH4III	ACNGT	2 cut(s)	92, 129
HpyCH4V	TGCA	7 cut(s)	4, 33, 156, 312, 458, 464, 580
HpyF10VI	GCNNNNNNNGC	1 cut(s)	488
HpyF3I	CTNAG	2 cut(s)	49, 54
Hsp92II	CATG	1 cut(s)	431
HspAI	GCGC	1 cut(s)	468
Kzo9I	GATC	2 cut(s)	268, 390
LguI	GCTCTTC	1 cut(s)	122
LpnPI	CCDG	6 cut(s)	6, 75, 240, 450, 456, 474
LweI	GCATC	1 cut(s)	321
MaeIII	GTNAC	2 cut(s)	80, 242
MalI	GATC	2 cut(s)	270, 392
MboI	GATC	2 cut(s)	268, 390
MboII	GAAGA	2 cut(s)	20, 109
MfeI	CAATTG	1 cut(s)	349
MflI	RGATCY	1 cut(s)	268
MlsI	TGGCCA	1 cut(s)	291
MluCI	AATT	7 cut(s)	179, 273, 337, 343, 349, 386, 507
MluNI	TGGCCA	1 cut(s)	291
MlyI	GAGTC	1 cut(s)	431
MmeI	TCCRAC	1 cut(s)	159
MnlI	CCTC	5 cut(s)	49, 305, 370, 405, 525
Mox20I	TGGCCA	1 cut(s)	291
MscI	TGGCCA	1 cut(s)	291
MseI	TTAA	2 cut(s)	182, 591
Msp20I	TGGCCA	1 cut(s)	291
MunI	CAATTG	1 cut(s)	349
Mva1269I	GAATGC	1 cut(s)	35
MwoI	GCNNNNNNNGC	1 cut(s)	488
NdeII	GATC	2 cut(s)	268, 390
NlaIII	CATG	1 cut(s)	431
NlaIV	GGNNCC	1 cut(s)	60
NmuCI	GTSAC	1 cut(s)	80
PaqCI	CACCTGC	1 cut(s)	469
PciSI	GCTCTTC	1 cut(s)	122
PctI	GAATGC	1 cut(s)	35
PfeI	GAWTC	2 cut(s)	215, 431
PflFI	GACNNNGTC	1 cut(s)	62
PflMI	CCANNNNNTGG	1 cut(s)	354
PleI	GAGTC	1 cut(s)	431
PpsI	GAGTC	1 cut(s)	431
PpuMI	RGGWCCY	1 cut(s)	58
PshBI	ATTAAT	1 cut(s)	182
PsiI	TTATAA	1 cut(s)	278
Psp5II	RGGWCCY	1 cut(s)	58
PspEI	GGTNACC	1 cut(s)	80
PspN4I	GGNNCC	1 cut(s)	60
PspPI	GGNCC	1 cut(s)	58
PspPPI	RGGWCCY	1 cut(s)	58
PstI	CTGCAG	1 cut(s)	466
PstNI	CAGNNNCTG	1 cut(s)	470
PsuI	RGATCY	1 cut(s)	268
PsyI	GACNNNGTC	1 cut(s)	62
SapI	GCTCTTC	1 cut(s)	122
SaqAI	TTAA	2 cut(s)	182, 591
Sau3AI	GATC	2 cut(s)	268, 390
Sau96I	GGNCC	1 cut(s)	58
SbfI	CCTGCAGG	1 cut(s)	466
SchI	GAGTC	1 cut(s)	431
SdaI	CCTGCAGG	1 cut(s)	466
SetI	ASST	8 cut(s)	22, 55, 87, 265, 297, 446, 454, 463
SfaNI	GCATC	1 cut(s)	321
SfcI	CTRYAG	1 cut(s)	462
SinI	GGWCC	1 cut(s)	58
SmlI	CTYRAG	2 cut(s)	264, 439
SmoI	CTYRAG	2 cut(s)	264, 439
Sse8387I	CCTGCAGG	1 cut(s)	466
Sse9I	AATT	7 cut(s)	179, 273, 337, 343, 349, 386, 507
StyI	CCWWGG	1 cut(s)	492
TaaI	ACNGT	2 cut(s)	92, 129
TaqI	TCGA	2 cut(s)	168, 448
TasI	AATT	7 cut(s)	179, 273, 337, 343, 349, 386, 507
TfiI	GAWTC	2 cut(s)	215, 431
Tru1I	TTAA	2 cut(s)	182, 591
Tru9I	TTAA	2 cut(s)	182, 591
TscAI	CASTG	1 cut(s)	508
TseFI	GTSAC	1 cut(s)	80
Tsp45I	GTSAC	1 cut(s)	80
TspDTI	ATGAA	2 cut(s)	30, 528
TspRI	CASTG	1 cut(s)	508
Tth111I	GACNNNGTC	1 cut(s)	62
Van91I	CCANNNNNTGG	1 cut(s)	354
VpaK11BI	GGWCC	1 cut(s)	58
VspI	ATTAAT	1 cut(s)	182
XapI	RAATTY	2 cut(s)	337, 343

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