Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0002572

Physical Location & Seq

Genomic Coordinates Forward (+)

65445493 .. 65448591

Gene Structure 3099 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00046290.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 771 bp

ATGGAACAGAACTTCTTTGAGCCGCAGGGACACTTTGAGTCAGATGGAGATGTTTCGGTCAAGAAGTGGAAATCAATGTCAACCCCTACTATCGTCTCGGACAATGATAGTGGCTGCTTTGAGTGCAACATATGCTTAGATTCAGCACATGAACCTGTGGTGACACTTTGTGGTCACCTGTACTGCTGGCCTTGCATTTACAAATGGCTTCAGGTCCCAAGTGCTTCTGATGAACCAAACCAGCTGCAGCAAACCTGTCCTGTCTGTAAGGCTAACATTTCCCCATCCTCAGTGGTTCCCCTCTATGGCCGTGGTACAGGTTCAAAAGGAAAGAAACCCAATTTGGATCTGGTCGTACCACGTAGACCACCACCTAGGTTGGACACTTTGATTACATCTACTAGCCCTACATCACCTTCAAGACAGCAACTTCATTCAAATTATTTCCATACACAAATGCATCCAGAGTCAGTTTATGATCAATACAGCCCTTATTCTTATGGAGGTTATGCCACAAATTCAGAATCAGCTTATCTTGGCAGTACGATGTTGACACATTTATCCAATCCAACGATAGGAATGGTTGGAGAGTTTGTGTTTGCAAGGATGTTTGGCAACTCAGACACAAATTTGTTTACTTATCCTTATCTGAATTCGTACCCGCCCAGCAGTCCTAGGATGAGAAGACAGGAAGTTCAGCTTGACAAATCTCTTAATAGAGTCACCATCTTTCTTTTCTGCTGCTTTATTTTGTGTCTTCTCTTGTTCTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 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:0006950 GO:0006970 GO:0008150 GO:0008152 GO:0009056 GO:0009057 GO:0009266 GO:0009409 GO:0009414 GO:0009415 GO:0009611 GO:0009628 GO:0009719 GO:0009723 GO:0009725 GO:0009987 GO:0010033 GO:0010035 GO:0010243 GO:0010498 GO:0012505 GO:0016020 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019899 GO:0019941 GO:0030163 GO:0031984 GO:0032446 GO:0032991 GO:0033554 GO:0034976 GO:0035966 GO:0035967 GO:0036211 GO:0036503 GO:0036513 GO:0042175 GO:0042221 GO:0043161 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:0050896 GO:0051603 GO:0051716 GO:0051788 GO:0070647 GO:0070887 GO:0071218 GO:0071310 GO:0071704 GO:0071712 GO:0098796 GO:0098827 GO:0140096 GO:1901564 GO:1901565 GO:1901575 GO:1901698 GO:1901700

KEGG Pathways

Metabolic & Signaling

ko04141 map04141

Pfam Domains

Protein Families

zf-C3HC4 zf-C3HC4_2 zf-C3HC4_3

Protein Analysis

256

Amino Acids

28.8

Weight (kDa)

6.36

Isoelectric Point (pI)

54.65

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_2	PF13923	41 - 71	6.6e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	41 - 90	2.1e-06	Ring finger domain
zf-RING_5	PF14634	41 - 90	7.1e-06	zinc-RING finger domain
zf-C3HC4_3	PF13920	41 - 94	4.2e-06	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	42 - 89	3.1e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	42 - 71	3.8e-08	RING-type zinc-finger
RING_XB3-XBAT31	PF24921	42 - 94	1.6e-07	E3 ubiquitin-protein ligase XB3/XBAT31 RING finger
zf-C3HC4_4	PF15227	42 - 89	3.5e-06	zinc finger of C3HC4-type, RING

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

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Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0002572)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT4G27470
fragaria_vesca	FvH4_3g09330 FvH4_3g09330 FvH4_3g20120 FvH4_3g20120
malus_domestica	MD00G1096000.v1.1 MD03G1226000.v1.1 MD05G1313600.v1.1 MD11G1245000.v1.1
prunus_persica	Prupe.4G046100_v2.0.a1 Prupe.4G046100_v2.0.a1 Prupe.4G183300_v2.0.a1 Prupe.4G183300_v2.0.a1
pyrus_communis	pycom03g17380 pycom05g29140 pycom11g21710
rosa_chinensis	RchiOBHm_Chr5g0008261 RchiOBHm_Chr5g0033921
rosa_laevigata	RLG00000031556 RLG00000033511
rosa_multiflora	Rmu_co8308883.1_g000001 Rmu_sc0001150.1_g000012 Rmu_sc0001387.1_g000006 Rmu_sc0007228.1_g000004
rosa_roxburghii	Rroxscaffold_1G00046290 Rroxscaffold_1G00068210
rosa_rugosa	Rorug04G0434700 Rorug04G0434700 Rorug05G0143400
rosa_samantha	Rh2AG319600 Rh5AG063300 Rh5AG234200 Rh5BG059500 Rh5BG234800 Rh5CG070100 Rh5CG265100 Rh5DG059200 Rh5DG241700
rosa_wichuraiana	Rw5G005760 Rw5G021510

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccI	GTMKAC	1 cut(s)	364
AciI	CCGC	2 cut(s)	23, 662
AclWI	GGATC	1 cut(s)	354
AcoI	YGGCCR	1 cut(s)	307
AcsI	RAATTY	3 cut(s)	517, 628, 652
AcuI	CTGAAG	1 cut(s)	194
AdeI	CACNNNGTG	1 cut(s)	170
AfaI	GTAC	5 cut(s)	182, 316, 357, 544, 659
AfiI	CCNNNNNNNGG	2 cut(s)	305, 575
AgsI	TTSAA	3 cut(s)	324, 420, 438
AjuI	GAANNNNNNNTTGG	2 cut(s)	326, 358
AluBI	AGCT	3 cut(s)	244, 530, 700
AluI	AGCT	3 cut(s)	244, 530, 700
Alw26I	GTCTC	1 cut(s)	100
AlwI	GGATC	1 cut(s)	354
AoxI	GGCC	2 cut(s)	188, 307
ApeKI	GCWGC	4 cut(s)	114, 244, 247, 741
ApoI	RAATTY	3 cut(s)	517, 628, 652
AspA2I	CCTAGG	2 cut(s)	374, 674
AspS9I	GGNCC	1 cut(s)	214
AsuHPI	GGTGA	4 cut(s)	167, 172, 405, 715
AvaII	GGWCC	1 cut(s)	214
AvrII	CCTAGG	2 cut(s)	374, 674
BbsI	GAAGAC	2 cut(s)	691, 749
BbvI	GCAGC	4 cut(s)	101, 231, 259, 728
BccI	CCATC	3 cut(s)	38, 292, 734
BceAI	ACGGC	1 cut(s)	294
BclI	TGATCA	1 cut(s)	478
BcoDI	GTCTC	1 cut(s)	100
BfaI	CTAG	3 cut(s)	375, 402, 675
BfmI	CTRYAG	1 cut(s)	245
BisI	GCNGC	5 cut(s)	23, 115, 245, 248, 742
BlnI	CCTAGG	2 cut(s)	374, 674
BlsI	GCNGC	5 cut(s)	24, 116, 246, 249, 743
Bme18I	GGWCC	1 cut(s)	214
BmgT120I	GGNCC	1 cut(s)	214
BmiI	GGNNCC	2 cut(s)	216, 297
BmsI	GCATC	1 cut(s)	469
BpiI	GAAGAC	2 cut(s)	691, 749
BsaAI	YACGTR	1 cut(s)	362
BsaJI	CCNNGG	3 cut(s)	310, 374, 674
BsaXI	ACNNNNNCTCC	2 cut(s)	579, 609
Bsc4I	CCNNNNNNNGG	2 cut(s)	305, 575
BseDI	CCNNGG	3 cut(s)	310, 374, 674
BseGI	GGATG	4 cut(s)	284, 460, 612, 684
BseLI	CCNNNNNNNGG	2 cut(s)	305, 575
BseMII	CTCAG	2 cut(s)	303, 633
BseXI	GCAGC	4 cut(s)	101, 231, 259, 728
BseYI	CCCAGC	1 cut(s)	665
BshFI	GGCC	2 cut(s)	190, 309
BslFI	GGGAC	2 cut(s)	42, 200
BslI	CCNNNNNNNGG	2 cut(s)	305, 575
BsmAI	GTCTC	1 cut(s)	100
BsmBI	CGTCTC	1 cut(s)	100
BsmFI	GGGAC	2 cut(s)	42, 200
BsnI	GGCC	2 cut(s)	190, 309
Bsp143I	GATC	2 cut(s)	346, 478
BspACI	CCGC	2 cut(s)	23, 662
BspANI	GGCC	2 cut(s)	190, 309
BspCNI	CTCAG	2 cut(s)	302, 632
BspLI	GGNNCC	2 cut(s)	216, 297
BspMAI	CTGCAG	1 cut(s)	249
BspPI	GGATC	1 cut(s)	354
BssECI	CCNNGG	3 cut(s)	310, 374, 674
BssMI	GATC	2 cut(s)	346, 478
BssT1I	CCWWGG	2 cut(s)	374, 674
BstAPI	GCANNNNNTGC	1 cut(s)	132
BstBAI	YACGTR	1 cut(s)	362
BstC8I	GCNNGC	1 cut(s)	188
BstDEI	CTNAG	3 cut(s)	136, 289, 619
BstDSI	CCRYGG	1 cut(s)	310
BstEII	GGTNACC	1 cut(s)	173
BstF5I	GGATG	4 cut(s)	284, 460, 612, 684
BstKTI	GATC	2 cut(s)	349, 481
BstMAI	GTCTC	1 cut(s)	100
BstMBI	GATC	2 cut(s)	346, 478
BstMWI	GCNNNNNNNGC	3 cut(s)	123, 132, 192
BstPI	GGTNACC	1 cut(s)	173
BstSFI	CTRYAG	1 cut(s)	245
BstV1I	GCAGC	4 cut(s)	101, 231, 259, 728
BstV2I	GAAGAC	2 cut(s)	691, 749
BstX2I	RGATCY	1 cut(s)	346
BstYI	RGATCY	1 cut(s)	346
BsuRI	GGCC	2 cut(s)	190, 309
BtgI	CCRYGG	1 cut(s)	310
BtsCI	GGATG	4 cut(s)	284, 460, 612, 684
BtsIMutI	CAGTG	1 cut(s)	297
Cac8I	GCNNGC	1 cut(s)	188
Cfr13I	GGNCC	1 cut(s)	214
Csp6I	GTAC	5 cut(s)	181, 315, 356, 543, 658
CspCI	CAANNNNNGTGG	4 cut(s)	91, 126, 360, 395
CviAII	CATG	1 cut(s)	149
CviQI	GTAC	5 cut(s)	181, 315, 356, 543, 658
DdeI	CTNAG	3 cut(s)	136, 289, 619
DpnI	GATC	2 cut(s)	348, 480
DpnII	GATC	2 cut(s)	346, 478
DraIII	CACNNNGTG	1 cut(s)	170
EaeI	YGGCCR	1 cut(s)	307
Eco130I	CCWWGG	2 cut(s)	374, 674
Eco47I	GGWCC	1 cut(s)	214
Eco57I	CTGAAG	1 cut(s)	194
Eco91I	GGTNACC	1 cut(s)	173
EcoO109I	RGGNCCY	1 cut(s)	214
EcoO65I	GGTNACC	1 cut(s)	173
EcoRI	GAATTC	1 cut(s)	652
EcoT14I	CCWWGG	2 cut(s)	374, 674
EcoT22I	ATGCAT	1 cut(s)	462
ErhI	CCWWGG	2 cut(s)	374, 674
Esp3I	CGTCTC	1 cut(s)	100
FaeI	CATG	1 cut(s)	152
FaiI	YATR	8 cut(s)	131, 133, 150, 306, 450, 477, 501, 510
FalI	AAGNNNNNCTT	2 cut(s)	684, 716
FaqI	GGGAC	2 cut(s)	42, 200
FatI	CATG	1 cut(s)	148
FauI	CCCGC	1 cut(s)	669
FauNDI	CATATG	1 cut(s)	131
FbaI	TGATCA	1 cut(s)	478
FblI	GTMKAC	1 cut(s)	364
Fnu4HI	GCNGC	5 cut(s)	23, 115, 245, 248, 742
FokI	GGATG	4 cut(s)	271, 447, 619, 691
Fsp4HI	GCNGC	5 cut(s)	23, 115, 245, 248, 742
FspBI	CTAG	3 cut(s)	375, 402, 675
GluI	GCNGC	5 cut(s)	23, 115, 245, 248, 742
GsaI	CCCAGC	1 cut(s)	669
HaeIII	GGCC	2 cut(s)	190, 309
Hin1II	CATG	1 cut(s)	152
HincII	GTYRAC	2 cut(s)	81, 552
HindII	GTYRAC	2 cut(s)	81, 552
HinfI	GANTC	5 cut(s)	38, 140, 467, 524, 720
HphI	GGTGA	4 cut(s)	167, 172, 405, 715
Hpy166II	GTNNAC	4 cut(s)	81, 365, 552, 636
Hpy188I	TCNGA	7 cut(s)	43, 100, 229, 523, 622, 651, 770
Hpy188III	TCNNGA	3 cut(s)	61, 420, 464
Hpy8I	GTNNAC	4 cut(s)	81, 365, 552, 636
HpyAV	CCTTC	1 cut(s)	426
HpyCH4IV	ACGT	1 cut(s)	361
HpyCH4V	TGCA	5 cut(s)	126, 195, 247, 460, 602
HpyF10VI	GCNNNNNNNGC	3 cut(s)	123, 132, 192
HpyF3I	CTNAG	3 cut(s)	136, 289, 619
HpySE526I	ACGT	1 cut(s)	361
Hsp92II	CATG	1 cut(s)	152
Ksp22I	TGATCA	1 cut(s)	478
Kzo9I	GATC	2 cut(s)	346, 478
Lsp1109I	GCAGC	4 cut(s)	101, 231, 259, 728
LweI	GCATC	1 cut(s)	469
MaeI	CTAG	3 cut(s)	375, 402, 675
MaeII	ACGT	1 cut(s)	361
MaeIII	GTNAC	3 cut(s)	160, 173, 721
MalI	GATC	2 cut(s)	348, 480
MboI	GATC	2 cut(s)	346, 478
MboII	GAAGA	2 cut(s)	696, 749
MflI	RGATCY	1 cut(s)	346
MluCI	AATT	5 cut(s)	340, 439, 517, 628, 652
MlyI	GAGTC	3 cut(s)	47, 476, 729
MmeI	TCCRAC	3 cut(s)	360, 565, 593
MnlI	CCTC	3 cut(s)	298, 311, 497
Mph1103I	ATGCAT	1 cut(s)	462
MseI	TTAA	1 cut(s)	714
MspA1I	CMGCKG	1 cut(s)	244
MwoI	GCNNNNNNNGC	3 cut(s)	123, 132, 192
NdeI	CATATG	1 cut(s)	131
NdeII	GATC	2 cut(s)	346, 478
NlaIII	CATG	1 cut(s)	152
NlaIV	GGNNCC	2 cut(s)	216, 297
NmuCI	GTSAC	3 cut(s)	160, 173, 721
NsiI	ATGCAT	1 cut(s)	462
PfeI	GAWTC	2 cut(s)	140, 524
PkrI	GCNGC	5 cut(s)	24, 116, 246, 249, 743
PleI	GAGTC	3 cut(s)	46, 475, 728
PpsI	GAGTC	3 cut(s)	46, 475, 728
Ppu21I	YACGTR	1 cut(s)	362
PpuMI	RGGWCCY	1 cut(s)	214
Psp5II	RGGWCCY	1 cut(s)	214
PspEI	GGTNACC	1 cut(s)	173
PspFI	CCCAGC	1 cut(s)	665
PspN4I	GGNNCC	2 cut(s)	216, 297
PspPI	GGNCC	1 cut(s)	214
PspPPI	RGGWCCY	1 cut(s)	214
PstI	CTGCAG	1 cut(s)	249
PsuI	RGATCY	1 cut(s)	346
PvuII	CAGCTG	1 cut(s)	244
RsaI	GTAC	5 cut(s)	182, 316, 357, 544, 659
RsaNI	GTAC	5 cut(s)	181, 315, 356, 543, 658
SaqAI	TTAA	1 cut(s)	714
SatI	GCNGC	5 cut(s)	23, 115, 245, 248, 742
Sau3AI	GATC	2 cut(s)	346, 478
Sau96I	GGNCC	1 cut(s)	214
SchI	GAGTC	3 cut(s)	47, 476, 729
SfaNI	GCATC	1 cut(s)	469
SfcI	CTRYAG	1 cut(s)	245
SinI	GGWCC	1 cut(s)	214
Sse9I	AATT	5 cut(s)	340, 439, 517, 628, 652
SsiI	CCGC	2 cut(s)	23, 662
SspMI	CTAG	3 cut(s)	375, 402, 675
StyI	CCWWGG	2 cut(s)	374, 674
TaiI	ACGT	1 cut(s)	364
TaqII	GACCGA	1 cut(s)	46
TasI	AATT	5 cut(s)	340, 439, 517, 628, 652
TatI	WGTACW	1 cut(s)	180
TauI	GCSGC	1 cut(s)	25
TfiI	GAWTC	2 cut(s)	140, 524
Tru1I	TTAA	1 cut(s)	714
Tru9I	TTAA	1 cut(s)	714
TscAI	CASTG	1 cut(s)	297
TseFI	GTSAC	3 cut(s)	160, 173, 721
TseI	GCWGC	4 cut(s)	114, 244, 247, 741
Tsp45I	GTSAC	3 cut(s)	160, 173, 721
TspDTI	ATGAA	3 cut(s)	165, 246, 422
TspRI	CASTG	1 cut(s)	297
VpaK11BI	GGWCC	1 cut(s)	214
XapI	RAATTY	3 cut(s)	517, 628, 652
XcmI	CCANNNNNNNNNTGG	1 cut(s)	346
XmaJI	CCTAGG	2 cut(s)	374, 674
XmiI	GTMKAC	1 cut(s)	364
XspI	CTAG	3 cut(s)	375, 402, 675
Zsp2I	ATGCAT	1 cut(s)	462

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