Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr3

Orthogroup ID

OG0016750

Physical Location & Seq

Genomic Coordinates Forward (+)

53036535 .. 53037599

Gene Structure 1065 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000014429

Sequence Viewer

CDS Protein Promoter (2k)

Length: 612 bp

ATGGACGAAGACAATGAAGCTGGTTTTGAATGCAACATTTGCCTTGCCTTAGCTGAGGACCCAGTCATAACACTCTGTGGTCACCTTTACTGTTGGTCTTGTTTGGTCAAATGGCTCTTCAATTCGCAGTATTCCAACAATGAGTGTCCGATTTGCAAGTCCGACATCGAGTTCAGCAAATTAATCTTTACTTATGGAAAGTTGAAATCGTCTGAATCCAACCCGATATCTCGGTTTGAATGTAACATTTGCTCAGGATTAGCTCAAGATCCAATTATAACACACTGTGGCCACCTCTATTGTTGGCCTTGCATCTATAAATGGCTTTCCAAGTGGAATTCAAATTCCAATTGTTGGGTTTGTAATGCTGTCATAGAGGAGAACAAATTGATCCCTCTTTATGGAAAAGGGATAAAATCGTCATCACATGATTCGGACTCAAGCTTTCGAGCTATTGCCCCTGCGGGCGCTGGCAGTCTTACTTCAACTACCAAGGTGAACTGTTTTGTACGAGCTATAGAGTATCAAAAGATACACATTGCTGTTGTCATAAAGAATGCTATTGGATGCTATGCCCCAACTTTTCTCATAGACGATGGAACTGCTTCTTAA

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

204

Amino Acids

22.54

Weight (kDa)

5.7

Isoelectric Point (pI)

51.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_3	PF13920	10 - 57	1.2e-09	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	10 - 52	1.8e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	10 - 53	1.6e-08	Ring finger domain
zf-RING_5	PF14634	10 - 53	1.4e-07	zinc-RING finger domain
zf-C3HC4	PF00097	11 - 52	4.8e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	11 - 50	3.2e-09	RING-type zinc-finger
zf-C3HC4_4	PF15227	11 - 52	3.6e-06	zinc finger of C3HC4-type, RING
zf-C3HC4_3	PF13920	79 - 126	5.6e-07	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4_2	PF13923	80 - 121	2.6e-06	Zinc finger, C3HC4 type (RING finger)
zf-RING_5	PF14634	80 - 122	8.9e-06	zinc-RING finger domain
zf-C3HC4	PF00097	81 - 121	3.3e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	81 - 115	4.9e-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
AccB7I	CCANNNNNTGG	1 cut(s)	354
AciI	CCGC	1 cut(s)	464
AclWI	GGATC	2 cut(s)	263, 385
AcoI	YGGCCR	1 cut(s)	289
AcsI	RAATTY	2 cut(s)	337, 343
AdeI	CACNNNGTG	2 cut(s)	77, 287
AfaI	GTAC	1 cut(s)	510
AfiI	CCNNNNNNNGG	2 cut(s)	354, 401
AgsI	TTSAA	6 cut(s)	29, 121, 205, 239, 342, 486
AluBI	AGCT	6 cut(s)	20, 53, 263, 444, 452, 515
AluI	AGCT	6 cut(s)	20, 53, 263, 444, 452, 515
AlwI	GGATC	2 cut(s)	263, 385
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)	604
AspLEI	GCGC	1 cut(s)	470
AspS9I	GGNCC	1 cut(s)	58
AsuHPI	GGTGA	2 cut(s)	74, 508
AvaII	GGWCC	1 cut(s)	58
BalI	TGGCCA	1 cut(s)	291
BbsI	GAAGAC	1 cut(s)	15
BbvCI	CCTCAGC	1 cut(s)	54
BccI	CCATC	1 cut(s)	590
BcgI	CGANNNNNNTGC	1 cut(s)	584
BfmI	CTRYAG	1 cut(s)	516
BfoI	RGCGCY	1 cut(s)	471
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, 557
BmuI	ACTGGG	1 cut(s)	56
BpiI	GAAGAC	1 cut(s)	15
Bpu10I	CCTNAGC	3 cut(s)	49, 54, 253
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
Bse3DI	GCAATG	1 cut(s)	537
BseDI	CCNNGG	1 cut(s)	492
BseGI	GGATG	1 cut(s)	572
BseLI	CCNNNNNNNGG	2 cut(s)	354, 401
BseMI	GCAATG	1 cut(s)	537
BseMII	CTCAG	2 cut(s)	45, 267
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	2 cut(s)	35, 562
BsnI	GGCC	2 cut(s)	291, 307
Bsp143I	GATC	2 cut(s)	268, 390
BspACI	CCGC	1 cut(s)	464
BspANI	GGCC	2 cut(s)	291, 307
BspCNI	CTCAG	2 cut(s)	46, 266
BspLI	GGNNCC	1 cut(s)	60
BspPI	GGATC	2 cut(s)	263, 385
BspQI	GCTCTTC	1 cut(s)	122
BsrDI	GCAATG	1 cut(s)	537
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	3 cut(s)	92, 287, 503
Bst6I	CTCTTC	1 cut(s)	122
BstAPI	GCANNNNNTGC	1 cut(s)	39
BstC8I	GCNNGC	2 cut(s)	466, 472
BstDEI	CTNAG	3 cut(s)	49, 54, 253
BstEII	GGTNACC	1 cut(s)	80
BstF5I	GGATG	1 cut(s)	572
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)	39
BstPI	GGTNACC	1 cut(s)	80
BstSFI	CTRYAG	1 cut(s)	516
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
BtsCI	GGATG	1 cut(s)	572
BtsIMutI	CAGTG	1 cut(s)	283
Cac8I	GCNNGC	2 cut(s)	466, 472
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	1 cut(s)	428
CviQI	GTAC	1 cut(s)	509
DdeI	CTNAG	3 cut(s)	49, 54, 253
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	1 cut(s)	228
Eco47I	GGWCC	1 cut(s)	58
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	1 cut(s)	228
EcoT14I	CCWWGG	1 cut(s)	492
ErhI	CCWWGG	1 cut(s)	492
FaeI	CATG	1 cut(s)	431
FatI	CATG	1 cut(s)	427
FauI	CCCGC	1 cut(s)	457
FokI	GGATG	1 cut(s)	579
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	2 cut(s)	74, 508
Hpy166II	GTNNAC	1 cut(s)	499
Hpy188I	TCNGA	4 cut(s)	150, 163, 214, 436
Hpy188III	TCNNGA	2 cut(s)	255, 266
Hpy8I	GTNNAC	1 cut(s)	499
HpyCH4III	ACNGT	3 cut(s)	92, 287, 503
HpyCH4V	TGCA	3 cut(s)	33, 156, 312
HpyF10VI	GCNNNNNNNGC	1 cut(s)	39
HpyF3I	CTNAG	3 cut(s)	49, 54, 253
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	5 cut(s)	6, 75, 240, 456, 474
LweI	GCATC	2 cut(s)	321, 557
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)	121, 179, 273, 337, 343, 349, 386
MluNI	TGGCCA	1 cut(s)	291
MlyI	GAGTC	1 cut(s)	431
MmeI	TCCRAC	3 cut(s)	159, 186, 243
MnlI	CCTC	4 cut(s)	49, 305, 370, 405
Mox20I	TGGCCA	1 cut(s)	291
MroXI	GAANNNNTTC	1 cut(s)	604
MscI	TGGCCA	1 cut(s)	291
MseI	TTAA	2 cut(s)	182, 610
Msp20I	TGGCCA	1 cut(s)	291
MunI	CAATTG	1 cut(s)	349
Mva1269I	GAATGC	2 cut(s)	35, 562
MwoI	GCNNNNNNNGC	1 cut(s)	39
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
PciSI	GCTCTTC	1 cut(s)	122
PctI	GAATGC	2 cut(s)	35, 562
PdmI	GAANNNNTTC	1 cut(s)	604
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
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	2 cut(s)	182, 610
Sau3AI	GATC	2 cut(s)	268, 390
Sau96I	GGNCC	1 cut(s)	58
SchI	GAGTC	1 cut(s)	431
SetI	ASST	9 cut(s)	22, 55, 87, 265, 297, 446, 454, 498, 517
SfaNI	GCATC	2 cut(s)	321, 557
SfcI	CTRYAG	1 cut(s)	516
SinI	GGWCC	1 cut(s)	58
SmlI	CTYRAG	2 cut(s)	264, 439
SmoI	CTYRAG	2 cut(s)	264, 439
Sse9I	AATT	7 cut(s)	121, 179, 273, 337, 343, 349, 386
SsiI	CCGC	1 cut(s)	464
StyI	CCWWGG	1 cut(s)	492
TaaI	ACNGT	3 cut(s)	92, 287, 503
TaqI	TCGA	2 cut(s)	168, 448
TasI	AATT	7 cut(s)	121, 179, 273, 337, 343, 349, 386
TfiI	GAWTC	2 cut(s)	215, 431
Tru1I	TTAA	2 cut(s)	182, 610
Tru9I	TTAA	2 cut(s)	182, 610
TscAI	CASTG	1 cut(s)	290
TseFI	GTSAC	1 cut(s)	80
Tsp45I	GTSAC	1 cut(s)	80
TspDTI	ATGAA	1 cut(s)	30
TspRI	CASTG	1 cut(s)	290
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)	604

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