Basic Information

Type: gene

Biological Identity

Species

rosa_laevigata

Chromosome

Chr7

Orthogroup ID

OG0002572

Physical Location & Seq

Genomic Coordinates Reverse (-)

28289235 .. 28292690

Gene Structure 3456 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

RLM00000033511

Sequence Viewer

CDS Protein Promoter (2k)

Length: 930 bp

ATGGTACAACTGTGTAACTTGCCAACTATTGTGCAACTTAGTTTGGATTGGTTATCGATCAAACCCACGTCTCTCTCTCTCTCTCTCGCTCGCTCCGATCTCCCTTCGATTACACTCCCCACCTTTCATCGGTTTCAACTCTTTCTCGAACACCTCGCCATGGAACAGAACTTCTTTGAGCCTCAGGGACACTTTGACTCAGATGGAGATGTTTCGGTCAAGAAGTGGAAATCAATGTCGGCCCCTACTAAAGTCTCGGACAATGATAGTGGCTGCTTTGAGTGCAACATATGCTTAGATTCAGCACATGAACCTGTGGTGACACTCTGTGGTCACCTGTACTGCTGGCCTTGCATTTACAAATGGCTTCAGGTCCCGAGTGCTTCTGATGAACCAAACCAGCTGCAGCAAACCTGTCCTGTTTGTAAGGCTAACATTTCCCCATCCTCAGTGGTTCCCCTTTATGGCCGTGGTGCAGGTTCAACAGGAAACAAACCCAATTTGGGTCTGGTTGTACCACGTCGACCACCACCTAGGTTGGACACTTTGGTTACATCTACTAGCCCTACATCACCTTCAAGACAGCAACTTCATTCAAATTATTTCCATACACAAACACATCCAGAGTCAGTTTATGATCAATACAGCCCTTATTCTTATGGAGGTTATGCCACAAATTCAGAGTCAGGTTATCTTGGCAGTACGATGTTGACACATTTATCCAATCCAACAATAGGAATGGTTGGAGAGTTTGTGTTCGCAAGGATGTTTGGGAGCTCAGACACAAATTTGTTTACTTATCCGTATCTGAATTCATACCCGCCGAGCAGTCCTAGGATGAGAAGACAGGAAGTTCAGCTTGACAAATCTCTTAATAGAGTCACCATCTTTCTTTTCTGCTGCTTTATTTTGTGTCTTCTCTTGTTCTGA

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

310

Amino Acids

34.55

Weight (kDa)

6.49

Isoelectric Point (pI)

51.23

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_2	PF13923	94 - 124	8.6e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_2	PF13639	94 - 143	2.4e-06	Ring finger domain
zf-RING_5	PF14634	94 - 143	9.7e-06	zinc-RING finger domain
zf-C3HC4_3	PF13920	94 - 147	5.7e-06	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	95 - 142	4.1e-09	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	95 - 124	4.3e-08	RING-type zinc-finger
RING_XB3-XBAT31	PF24921	95 - 147	2.2e-07	E3 ubiquitin-protein ligase XB3/XBAT31 RING finger
zf-C3HC4_4	PF15227	95 - 142	4.9e-06	zinc finger of C3HC4-type, RING

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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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)
Acc36I	ACCTGC	1 cut(s)	467
AccI	GTMKAC	1 cut(s)	523
AciI	CCGC	1 cut(s)	821
AcoI	YGGCCR	1 cut(s)	466
AcsI	RAATTY	3 cut(s)	676, 787, 811
AcuI	CTGAAG	1 cut(s)	353
AdeI	CACNNNGTG	1 cut(s)	329
AfaI	GTAC	4 cut(s)	6, 341, 516, 703
AfiI	CCNNNNNNNGG	5 cut(s)	129, 160, 464, 503, 734
AgsI	TTSAA	4 cut(s)	137, 483, 579, 597
AjiI	CACGTC	2 cut(s)	69, 521
AluBI	AGCT	3 cut(s)	403, 777, 859
AluI	AGCT	3 cut(s)	403, 777, 859
Alw21I	GWGCWC	1 cut(s)	779
Alw26I	GTCTC	2 cut(s)	75, 259
Ama87I	CYCGRG	1 cut(s)	376
AoxI	GGCC	3 cut(s)	240, 347, 466
ApeKI	GCWGC	4 cut(s)	273, 403, 406, 900
ApoI	RAATTY	3 cut(s)	676, 787, 811
ArsI	GACNNNNNNTTYG	2 cut(s)	668, 700
AspA2I	CCTAGG	2 cut(s)	533, 833
AspS9I	GGNCC	2 cut(s)	241, 373
AsuHPI	GGTGA	4 cut(s)	326, 331, 564, 874
AvaI	CYCGRG	1 cut(s)	376
AvaII	GGWCC	1 cut(s)	373
AvrII	CCTAGG	2 cut(s)	533, 833
AxyI	CCTNAGG	1 cut(s)	183
BaeI	ACNNNNGTAYC	1 cut(s)	29
BanII	GRGCYC	1 cut(s)	779
BbsI	GAAGAC	2 cut(s)	850, 908
Bbv12I	GWGCWC	1 cut(s)	779
BbvI	GCAGC	4 cut(s)	260, 390, 418, 887
BccI	CCATC	3 cut(s)	197, 451, 893
BceAI	ACGGC	1 cut(s)	453
BclI	TGATCA	1 cut(s)	637
BcoDI	GTCTC	2 cut(s)	75, 259
BfaI	CTAG	3 cut(s)	534, 561, 834
BfmI	CTRYAG	1 cut(s)	404
BfuAI	ACCTGC	1 cut(s)	467
BisI	GCNGC	4 cut(s)	274, 404, 407, 901
BlnI	CCTAGG	2 cut(s)	533, 833
BlsI	GCNGC	4 cut(s)	275, 405, 408, 902
Bme18I	GGWCC	1 cut(s)	373
BmeT110I	CYCGRG	1 cut(s)	376
BmgBI	CACGTC	2 cut(s)	69, 521
BmgT120I	GGNCC	2 cut(s)	241, 373
BmiI	GGNNCC	3 cut(s)	243, 375, 456
BpiI	GAAGAC	2 cut(s)	850, 908
Bsa29I	ATCGAT	1 cut(s)	56
BsaJI	CCNNGG	4 cut(s)	159, 469, 533, 833
BsaXI	ACNNNNNCTCC	2 cut(s)	738, 768
Bsc4I	CCNNNNNNNGG	5 cut(s)	129, 160, 464, 503, 734
Bse21I	CCTNAGG	1 cut(s)	183
BseCI	ATCGAT	1 cut(s)	56
BseDI	CCNNGG	4 cut(s)	159, 469, 533, 833
BseGI	GGATG	4 cut(s)	443, 619, 771, 843
BseLI	CCNNNNNNNGG	5 cut(s)	129, 160, 464, 503, 734
BseMII	CTCAG	4 cut(s)	197, 213, 462, 792
BseXI	GCAGC	4 cut(s)	260, 390, 418, 887
BsgI	GTGCAG	1 cut(s)	495
BshFI	GGCC	3 cut(s)	242, 349, 468
BshVI	ATCGAT	1 cut(s)	56
BsiHKAI	GWGCWC	1 cut(s)	779
BsiHKCI	CYCGRG	1 cut(s)	376
BslFI	GGGAC	2 cut(s)	201, 359
BslI	CCNNNNNNNGG	5 cut(s)	129, 160, 464, 503, 734
BsmAI	GTCTC	2 cut(s)	75, 259
BsmBI	CGTCTC	1 cut(s)	75
BsmFI	GGGAC	2 cut(s)	201, 359
BsnI	GGCC	3 cut(s)	242, 349, 468
BsoBI	CYCGRG	1 cut(s)	376
Bsp1286I	GDGCHC	1 cut(s)	779
Bsp143I	GATC	3 cut(s)	57, 97, 637
Bsp19I	CCATGG	1 cut(s)	159
BspACI	CCGC	1 cut(s)	821
BspANI	GGCC	3 cut(s)	242, 349, 468
BspCNI	CTCAG	4 cut(s)	196, 212, 461, 791
BspDI	ATCGAT	1 cut(s)	56
BspLI	GGNNCC	3 cut(s)	243, 375, 456
BspMAI	CTGCAG	1 cut(s)	408
BspMI	ACCTGC	1 cut(s)	467
BssECI	CCNNGG	4 cut(s)	159, 469, 533, 833
BssMI	GATC	3 cut(s)	57, 97, 637
BssT1I	CCWWGG	3 cut(s)	159, 533, 833
Bst4CI	ACNGT	1 cut(s)	12
BstAPI	GCANNNNNTGC	1 cut(s)	291
BstC8I	GCNNGC	2 cut(s)	91, 347
BstDEI	CTNAG	6 cut(s)	38, 183, 199, 295, 448, 778
BstDSI	CCRYGG	2 cut(s)	159, 469
BstEII	GGTNACC	1 cut(s)	332
BstF5I	GGATG	4 cut(s)	443, 619, 771, 843
BstKTI	GATC	3 cut(s)	60, 100, 640
BstMAI	GTCTC	2 cut(s)	75, 259
BstMBI	GATC	3 cut(s)	57, 97, 637
BstMWI	GCNNNNNNNGC	3 cut(s)	282, 291, 351
BstPI	GGTNACC	1 cut(s)	332
BstSFI	CTRYAG	1 cut(s)	404
BstV1I	GCAGC	4 cut(s)	260, 390, 418, 887
BstV2I	GAAGAC	2 cut(s)	850, 908
Bsu15I	ATCGAT	1 cut(s)	56
Bsu36I	CCTNAGG	1 cut(s)	183
BsuRI	GGCC	3 cut(s)	242, 349, 468
BsuTUI	ATCGAT	1 cut(s)	56
BtgI	CCRYGG	2 cut(s)	159, 469
BtrI	CACGTC	2 cut(s)	69, 521
BtsCI	GGATG	4 cut(s)	443, 619, 771, 843
BtsIMutI	CAGTG	1 cut(s)	456
BveI	ACCTGC	1 cut(s)	467
Cac8I	GCNNGC	2 cut(s)	91, 347
Cfr13I	GGNCC	2 cut(s)	241, 373
ClaI	ATCGAT	1 cut(s)	56
Csp6I	GTAC	4 cut(s)	5, 340, 515, 702
CspCI	CAANNNNNGTGG	4 cut(s)	250, 285, 519, 554
CviAII	CATG	2 cut(s)	160, 308
CviQI	GTAC	4 cut(s)	5, 340, 515, 702
DdeI	CTNAG	6 cut(s)	38, 183, 199, 295, 448, 778
DpnI	GATC	3 cut(s)	59, 99, 639
DpnII	GATC	3 cut(s)	57, 97, 637
DraIII	CACNNNGTG	1 cut(s)	329
EaeI	YGGCCR	1 cut(s)	466
Ecl136II	GAGCTC	1 cut(s)	777
Eco130I	CCWWGG	3 cut(s)	159, 533, 833
Eco24I	GRGCYC	1 cut(s)	779
Eco47I	GGWCC	1 cut(s)	373
Eco53kI	GAGCTC	1 cut(s)	777
Eco57I	CTGAAG	1 cut(s)	353
Eco81I	CCTNAGG	1 cut(s)	183
Eco88I	CYCGRG	1 cut(s)	376
Eco91I	GGTNACC	1 cut(s)	332
EcoICRI	GAGCTC	1 cut(s)	777
EcoO109I	RGGNCCY	1 cut(s)	373
EcoO65I	GGTNACC	1 cut(s)	332
EcoRI	GAATTC	1 cut(s)	811
EcoT14I	CCWWGG	3 cut(s)	159, 533, 833
EcoT38I	GRGCYC	1 cut(s)	779
ErhI	CCWWGG	3 cut(s)	159, 533, 833
Esp3I	CGTCTC	1 cut(s)	75
FaeI	CATG	2 cut(s)	163, 311
FalI	AAGNNNNNCTT	2 cut(s)	843, 875
FaqI	GGGAC	2 cut(s)	201, 359
FatI	CATG	2 cut(s)	159, 307
FauI	CCCGC	1 cut(s)	828
FauNDI	CATATG	1 cut(s)	290
FbaI	TGATCA	1 cut(s)	637
FblI	GTMKAC	1 cut(s)	523
Fnu4HI	GCNGC	4 cut(s)	274, 404, 407, 901
FokI	GGATG	4 cut(s)	430, 606, 778, 850
FriOI	GRGCYC	1 cut(s)	779
Fsp4HI	GCNGC	4 cut(s)	274, 404, 407, 901
FspBI	CTAG	3 cut(s)	534, 561, 834
GluI	GCNGC	4 cut(s)	274, 404, 407, 901
HaeIII	GGCC	3 cut(s)	242, 349, 468
Hin1II	CATG	2 cut(s)	163, 311
HincII	GTYRAC	2 cut(s)	524, 711
HindII	GTYRAC	2 cut(s)	524, 711
HinfI	GANTC	5 cut(s)	197, 299, 626, 683, 879
HphI	GGTGA	4 cut(s)	326, 331, 564, 874
Hpy166II	GTNNAC	3 cut(s)	524, 711, 795
Hpy188I	TCNGA	8 cut(s)	97, 202, 259, 388, 682, 781, 810, 929
Hpy188III	TCNNGA	5 cut(s)	146, 220, 376, 579, 623
Hpy8I	GTNNAC	3 cut(s)	524, 711, 795
Hpy99I	CGWCG	1 cut(s)	525
HpyAV	CCTTC	2 cut(s)	114, 585
HpyCH4III	ACNGT	1 cut(s)	12
HpyCH4IV	ACGT	2 cut(s)	68, 520
HpyCH4V	TGCA	5 cut(s)	34, 285, 354, 406, 476
HpyF10VI	GCNNNNNNNGC	3 cut(s)	282, 291, 351
HpyF3I	CTNAG	6 cut(s)	38, 183, 199, 295, 448, 778
HpySE526I	ACGT	2 cut(s)	68, 520
Hsp92II	CATG	2 cut(s)	163, 311
Ksp22I	TGATCA	1 cut(s)	637
Kzo9I	GATC	3 cut(s)	57, 97, 637
LmnI	GCTCC	2 cut(s)	98, 774
Lsp1109I	GCAGC	4 cut(s)	260, 390, 418, 887
MaeI	CTAG	3 cut(s)	534, 561, 834
MaeII	ACGT	2 cut(s)	68, 520
MaeIII	GTNAC	5 cut(s)	14, 319, 332, 550, 880
MalI	GATC	3 cut(s)	59, 99, 639
MboI	GATC	3 cut(s)	57, 97, 637
MboII	GAAGA	2 cut(s)	855, 908
MhlI	GDGCHC	1 cut(s)	779
MluCI	AATT	5 cut(s)	499, 598, 676, 787, 811
MlyI	GAGTC	4 cut(s)	191, 635, 692, 888
MmeI	TCCRAC	3 cut(s)	519, 724, 752
MnlI	CCTC	4 cut(s)	164, 192, 457, 656
MseI	TTAA	1 cut(s)	873
MspA1I	CMGCKG	1 cut(s)	403
MwoI	GCNNNNNNNGC	3 cut(s)	282, 291, 351
NcoI	CCATGG	1 cut(s)	159
NdeI	CATATG	1 cut(s)	290
NdeII	GATC	3 cut(s)	57, 97, 637
NlaIII	CATG	2 cut(s)	163, 311
NlaIV	GGNNCC	3 cut(s)	243, 375, 456
NmeAIII	GCCGAG	1 cut(s)	849
NmuCI	GTSAC	3 cut(s)	319, 332, 880
PcsI	WCGNNNNNNNCGW	1 cut(s)	93
PfeI	GAWTC	1 cut(s)	299
PkrI	GCNGC	4 cut(s)	275, 405, 408, 902
PleI	GAGTC	4 cut(s)	191, 634, 691, 887
PpsI	GAGTC	4 cut(s)	191, 634, 691, 887
PpuMI	RGGWCCY	1 cut(s)	373
Psp124BI	GAGCTC	1 cut(s)	779
Psp5II	RGGWCCY	1 cut(s)	373
PspEI	GGTNACC	1 cut(s)	332
PspN4I	GGNNCC	3 cut(s)	243, 375, 456
PspPI	GGNCC	2 cut(s)	241, 373
PspPPI	RGGWCCY	1 cut(s)	373
PstI	CTGCAG	1 cut(s)	408
PvuII	CAGCTG	1 cut(s)	403
RsaI	GTAC	4 cut(s)	6, 341, 516, 703
RsaNI	GTAC	4 cut(s)	5, 340, 515, 702
SacI	GAGCTC	1 cut(s)	779
SalI	GTCGAC	1 cut(s)	522
SaqAI	TTAA	1 cut(s)	873
SatI	GCNGC	4 cut(s)	274, 404, 407, 901
Sau3AI	GATC	3 cut(s)	57, 97, 637
Sau96I	GGNCC	2 cut(s)	241, 373
SchI	GAGTC	4 cut(s)	191, 635, 692, 888
SduI	GDGCHC	1 cut(s)	779
SfcI	CTRYAG	1 cut(s)	404
SinI	GGWCC	1 cut(s)	373
Sse9I	AATT	5 cut(s)	499, 598, 676, 787, 811
SsiI	CCGC	1 cut(s)	821
SspMI	CTAG	3 cut(s)	534, 561, 834
SstI	GAGCTC	1 cut(s)	779
StyI	CCWWGG	3 cut(s)	159, 533, 833
TaaI	ACNGT	1 cut(s)	12
TaiI	ACGT	2 cut(s)	71, 523
TaqI	TCGA	4 cut(s)	56, 107, 147, 523
TaqII	GACCGA	1 cut(s)	205
TasI	AATT	5 cut(s)	499, 598, 676, 787, 811
TatI	WGTACW	1 cut(s)	339
TfiI	GAWTC	1 cut(s)	299
Tru1I	TTAA	1 cut(s)	873
Tru9I	TTAA	1 cut(s)	873
TscAI	CASTG	1 cut(s)	456
TseFI	GTSAC	3 cut(s)	319, 332, 880
TseI	GCWGC	4 cut(s)	273, 403, 406, 900
Tsp45I	GTSAC	3 cut(s)	319, 332, 880
TspDTI	ATGAA	5 cut(s)	116, 324, 405, 581, 804
TspGWI	ACGGA	1 cut(s)	792
TspRI	CASTG	1 cut(s)	456
VpaK11BI	GGWCC	1 cut(s)	373
XapI	RAATTY	3 cut(s)	676, 787, 811
XcmI	CCANNNNNNNNNTGG	1 cut(s)	505
XmaJI	CCTAGG	2 cut(s)	533, 833
XmiI	GTMKAC	1 cut(s)	523
XspI	CTAG	3 cut(s)	534, 561, 834

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