Basic Information

Type: gene

Biological Identity

Species

rosa_chinensis

Chromosome

Orthogroup ID

OG0016750

Physical Location & Seq

Genomic Coordinates Reverse (-)

17204893 .. 17205645

Gene Structure 753 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

PRQ23534

Sequence Viewer

CDS Protein Promoter (2k)

Length: 753 bp

ATGCACGAAGACAATGAAGCTGGTTTTGAATGCAACATTTGTCTTGCCTTAGCTGAGGACCCAGTCATAACACTCTGTGGTCACCTTTACTGTTGGTCTTGTTTGGTCAAATGGCTCTTCAGTTCACAGTATTCCAACAATGAGTGTCCGATTTGCAAGTCCGATATCGAGTTCAGCAAATTAATCTTTTCTTATGGAAAGTTGAAATCGTCCGAATCCAAACCGATATCTTGGTTTGAATGTAACATTTGCTCTGGATTAGCTCAAGATCCAATTATAACACTCTGTGGCCACCTCTATTGTTGGCCTTGCATCTATAAATGGCTTTCCAAGTGGAATTCAAATTCCAATTGTTGGGTTTGTAATGCTGTCATAGAGGAGAACAAATTGATCCCTCTTTATGGAAAAGGGATAAAATCGTCATCACATGATTCGGACTCAAGCTTTCGAGCTGTTGCACCTGCAGGCGCTGGCAGTCTTGCTTCAACTGCCAAGGTGAACTGTTTTGTACGGTGTGCATTCGATGCTAGCCAGACCTTGTTTCGGTTTGGAAGATATACCATGGAGATTTTCATGACAAGGGTGTTGCCAGTAGTTGCAATTCTTTTGATGTTTCATCCCTCCATGCCGAGGGAAAGGAAAAACGATTTGGTGGAGAAGGTTTTCGGGTTGAGTTTGTGGTGTTTGTTGATTCTAGTCGTTTGGGATATCCTCAAGGGAAAAATTAGACGACATCACAAATTGGAACATTGA

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

250

Amino Acids

28.44

Weight (kDa)

8.09

Isoelectric Point (pI)

51.58

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	10 - 57	1.6e-09	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	10 - 52	2.4e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	10 - 53	2.2e-08	Ring finger domain
zf-RING_5	PF14634	10 - 53	1.7e-07	zinc-RING finger domain
zf-C3HC4	PF00097	11 - 52	5.9e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	11 - 50	4.7e-09	RING-type zinc-finger
zf-C3HC4_4	PF15227	11 - 52	4.4e-06	zinc finger of C3HC4-type, RING
zf-C3HC4_3	PF13920	80 - 126	3e-06	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	80 - 121	2.2e-06	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	81 - 121	3.5e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	81 - 115	7.9e-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
AfaI	GTAC	1 cut(s)	510
AfiI	CCNNNNNNNGG	4 cut(s)	354, 401, 543, 630
AgsI	TTSAA	5 cut(s)	29, 205, 239, 342, 486
AjuI	GAANNNNNNNTTGG	2 cut(s)	632, 664
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
Asp700I	GAANNNNTTC	1 cut(s)	662
AspLEI	GCGC	1 cut(s)	470
AspS9I	GGNCC	1 cut(s)	58
AsuHPI	GGTGA	2 cut(s)	74, 508
AsuNHI	GCTAGC	1 cut(s)	527
AvaII	GGWCC	1 cut(s)	58
BalI	TGGCCA	1 cut(s)	291
BbsI	GAAGAC	1 cut(s)	15
BbvCI	CCTCAGC	1 cut(s)	54
BfaI	CTAG	2 cut(s)	528, 695
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	2 cut(s)	321, 514
BmtI	GCTAGC	1 cut(s)	531
BmuI	ACTGGG	1 cut(s)	56
BpiI	GAAGAC	1 cut(s)	15
Bpu10I	CCTNAGC	2 cut(s)	49, 54
BpuEI	CTTGAG	3 cut(s)	249, 424, 698
BsaJI	CCNNGG	3 cut(s)	492, 561, 629
Bsc4I	CCNNNNNNNGG	4 cut(s)	354, 401, 543, 630
Bse1I	ACTGG	2 cut(s)	62, 590
BseDI	CCNNGG	3 cut(s)	492, 561, 629
BseGI	GGATG	1 cut(s)	616
BseLI	CCNNNNNNNGG	4 cut(s)	354, 401, 543, 630
BseMII	CTCAG	1 cut(s)	45
BseNI	ACTGG	2 cut(s)	62, 590
BseRI	GAGGAG	1 cut(s)	392
BshFI	GGCC	2 cut(s)	291, 307
BslI	CCNNNNNNNGG	4 cut(s)	354, 401, 543, 630
BsmI	GAATGC	2 cut(s)	35, 518
BsnI	GGCC	2 cut(s)	291, 307
Bsp143I	GATC	2 cut(s)	268, 390
Bsp19I	CCATGG	1 cut(s)	561
BspANI	GGCC	2 cut(s)	291, 307
BspCNI	CTCAG	1 cut(s)	46
BspHI	TCATGA	1 cut(s)	573
BspLI	GGNNCC	1 cut(s)	60
BspMAI	CTGCAG	1 cut(s)	466
BspMI	ACCTGC	1 cut(s)	469
BspOI	GCTAGC	1 cut(s)	531
BspPI	GGATC	2 cut(s)	263, 385
BspQI	GCTCTTC	1 cut(s)	122
BsrI	ACTGG	2 cut(s)	62, 590
BssECI	CCNNGG	3 cut(s)	492, 561, 629
BssMI	GATC	2 cut(s)	268, 390
BssT1I	CCWWGG	2 cut(s)	492, 561
Bst4CI	ACNGT	4 cut(s)	92, 129, 503, 513
Bst6I	CTCTTC	1 cut(s)	122
BstAPI	GCANNNNNTGC	1 cut(s)	524
BstC8I	GCNNGC	3 cut(s)	466, 472, 529
BstDEI	CTNAG	2 cut(s)	49, 54
BstDSI	CCRYGG	1 cut(s)	561
BstEII	GGTNACC	1 cut(s)	80
BstF5I	GGATG	1 cut(s)	616
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	2 cut(s)	488, 524
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
BtgI	CCRYGG	1 cut(s)	561
BtsCI	GGATG	1 cut(s)	616
BveI	ACCTGC	1 cut(s)	469
Cac8I	GCNNGC	3 cut(s)	466, 472, 529
CaiI	CAGNNNCTG	1 cut(s)	470
CciI	TCATGA	1 cut(s)	573
CfoI	GCGC	1 cut(s)	470
Cfr13I	GGNCC	1 cut(s)	58
Csp6I	GTAC	1 cut(s)	509
CspCI	CAANNNNNGTGG	2 cut(s)	281, 316
CviAII	CATG	4 cut(s)	428, 562, 574, 625
CviQI	GTAC	1 cut(s)	509
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	2 cut(s)	492, 561
Eco32I	GATATC	3 cut(s)	166, 228, 709
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	3 cut(s)	166, 228, 709
EcoT14I	CCWWGG	2 cut(s)	492, 561
ErhI	CCWWGG	2 cut(s)	492, 561
FaeI	CATG	4 cut(s)	431, 565, 577, 628
FatI	CATG	4 cut(s)	427, 561, 573, 624
FokI	GGATG	1 cut(s)	603
FspBI	CTAG	2 cut(s)	528, 695
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	4 cut(s)	431, 565, 577, 628
Hin6I	GCGC	1 cut(s)	468
HinP1I	GCGC	1 cut(s)	468
HindIII	AAGCTT	1 cut(s)	442
HinfI	GANTC	4 cut(s)	215, 431, 437, 691
HphI	GGTGA	2 cut(s)	74, 508
Hpy166II	GTNNAC	2 cut(s)	125, 499
Hpy188I	TCNGA	4 cut(s)	150, 163, 214, 436
Hpy188III	TCNNGA	3 cut(s)	255, 266, 574
Hpy8I	GTNNAC	2 cut(s)	125, 499
HpyAV	CCTTC	1 cut(s)	652
HpyCH4III	ACNGT	4 cut(s)	92, 129, 503, 513
HpyCH4V	TGCA	8 cut(s)	4, 33, 156, 312, 458, 464, 518, 599
HpyF10VI	GCNNNNNNNGC	2 cut(s)	488, 524
HpyF3I	CTNAG	2 cut(s)	49, 54
Hsp92II	CATG	4 cut(s)	431, 565, 577, 628
HspAI	GCGC	1 cut(s)	468
Kzo9I	GATC	2 cut(s)	268, 390
LguI	GCTCTTC	1 cut(s)	122
LpnPI	CCDG	8 cut(s)	6, 75, 240, 450, 456, 474, 545, 603
LweI	GCATC	2 cut(s)	321, 514
MaeI	CTAG	2 cut(s)	528, 695
MaeIII	GTNAC	2 cut(s)	80, 242
MalI	GATC	2 cut(s)	270, 392
MboI	GATC	2 cut(s)	268, 390
MboII	GAAGA	3 cut(s)	20, 109, 564
MfeI	CAATTG	1 cut(s)	349
MflI	RGATCY	1 cut(s)	268
MlsI	TGGCCA	1 cut(s)	291
MluCI	AATT	9 cut(s)	179, 273, 337, 343, 349, 386, 600, 723, 740
MluNI	TGGCCA	1 cut(s)	291
MlyI	GAGTC	1 cut(s)	431
MmeI	TCCRAC	1 cut(s)	159
MnlI	CCTC	7 cut(s)	49, 305, 370, 405, 624, 631, 722
Mox20I	TGGCCA	1 cut(s)	291
MroXI	GAANNNNTTC	1 cut(s)	662
MscI	TGGCCA	1 cut(s)	291
MseI	TTAA	1 cut(s)	182
Msp20I	TGGCCA	1 cut(s)	291
MunI	CAATTG	1 cut(s)	349
Mva1269I	GAATGC	2 cut(s)	35, 518
MwoI	GCNNNNNNNGC	2 cut(s)	488, 524
NcoI	CCATGG	1 cut(s)	561
NdeII	GATC	2 cut(s)	268, 390
NheI	GCTAGC	1 cut(s)	527
NlaIII	CATG	4 cut(s)	431, 565, 577, 628
NlaIV	GGNNCC	1 cut(s)	60
NmeAIII	GCCGAG	1 cut(s)	654
NmuCI	GTSAC	1 cut(s)	80
PagI	TCATGA	1 cut(s)	573
PaqCI	CACCTGC	1 cut(s)	469
PciSI	GCTCTTC	1 cut(s)	122
PctI	GAATGC	2 cut(s)	35, 518
PdmI	GAANNNNTTC	1 cut(s)	662
PfeI	GAWTC	3 cut(s)	215, 431, 691
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
RsaI	GTAC	1 cut(s)	510
RsaNI	GTAC	1 cut(s)	509
SapI	GCTCTTC	1 cut(s)	122
SaqAI	TTAA	1 cut(s)	182
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
SfaNI	GCATC	2 cut(s)	321, 514
SfcI	CTRYAG	1 cut(s)	462
SinI	GGWCC	1 cut(s)	58
SmlI	CTYRAG	3 cut(s)	264, 439, 713
SmoI	CTYRAG	3 cut(s)	264, 439, 713
Sse8387I	CCTGCAGG	1 cut(s)	466
Sse9I	AATT	9 cut(s)	179, 273, 337, 343, 349, 386, 600, 723, 740
SspMI	CTAG	2 cut(s)	528, 695
StyI	CCWWGG	2 cut(s)	492, 561
TaaI	ACNGT	4 cut(s)	92, 129, 503, 513
TaqI	TCGA	3 cut(s)	168, 448, 522
TasI	AATT	9 cut(s)	179, 273, 337, 343, 349, 386, 600, 723, 740
TfiI	GAWTC	3 cut(s)	215, 431, 691
Tru1I	TTAA	1 cut(s)	182
Tru9I	TTAA	1 cut(s)	182
TseFI	GTSAC	1 cut(s)	80
Tsp45I	GTSAC	1 cut(s)	80
TspDTI	ATGAA	3 cut(s)	30, 562, 605
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
XmnI	GAANNNNTTC	1 cut(s)	662
XspI	CTAG	2 cut(s)	528, 695

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