Basic Information

Type: gene

Biological Identity

Species

rosa_wichuraiana

Chromosome

Chr6

Orthogroup ID

OG0001656

Physical Location & Seq

Genomic Coordinates Reverse (-)

50829778 .. 50834151

Gene Structure 4374 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rw6G027130.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 990 bp

ATGTCGAATCAGGTGGTGAAAGTCAAGAGGGAGACGATTACAGCATGCATGACCTGCCCGCTGTGCGATAAGCTGTTCAGAGAGGCCACCACCATATCTGAATGTCTTCATACGTTTTGCAGGAAGTGCATATATGACAAGATCACGGAAGAGGAAATAGAGTACTGTCCAATATGCAAGACTGATCTGGGTTGTGTTCCCTTGGAGAAATTAAGGCCTGACCACAATATGCAAGATGTAAGGGCCAAGATTTTCCCTTTCAAAAGAAGAAAGGTGAATGCACCTGAAACTATGCCTTCAGCACTGCCGGCTAGAAGAAAGGAGAGATCACTCTCATCATTGGTGGTCAGTACTCCCAGAGTGTCATCAACCCAGGCGACCATGACTGGAAGGAGAACTAAAGCTGTTGCAAGAAAGGCTTCTACTTTACAAGGATCCAGTTTTGTGGTTGAGAGGTCTGTTAATAAAGAGGACGGATCTGGGGAAGATCATGCAGAGAGCCAAAGCTCCCTGGAGGCCTCAGATAAGTCCGGTCAAAATGCCAGGCCGAGTTCGTTTTCTGCCGAACCCAGTGAACCTGTATCCAATAAAGAATCTGAGAATGGTGCTGAATCATGGGATGGGAAGTTAGACCTTTGGAAACCTCTAAATTGTTTGGTGGAAGTTGCAAATCGGACCAAGTCTCTGAAACCCAATTCACAAGGGTCTGAAAGAGTAGAAGCGGCTGTCATTCCCAATGAAACTCAAGTTCGTAAATTCAAGAATAAAGAAAACAAACAGAAATCAAAAGTTGAGGATGAAAAGAATAGCACTCATCCTCCCTCTCCTGAAACAATAAAACCTAAAAAGTTGCGTAGGGCTCGCCAAAAGAGGGAAGCTGTAGGAGAATCAAGCGTTACACCCCAAGCTGTTTTGGATGCAGCCAGTGGAAAACTTGAAAGAAGAGTTGGTCCAATTTGGTTCTCCCTAGTAGCTTCTGAAGAACAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003824 GO:0004842 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006464 GO:0006807 GO:0006950 GO:0008150 GO:0008152 GO:0009414 GO:0009415 GO:0009628 GO:0009987 GO:0010035 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0032446 GO:0036211 GO:0042221 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044424 GO:0044464 GO:0050896 GO:0051865 GO:0070647 GO:0071704 GO:0140096 GO:1901564 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-C3HC4 zf-C3HC4_2

Protein Analysis

329

Amino Acids

36.65

Weight (kDa)

9.21

Isoelectric Point (pI)

63.4

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-C3HC4_2	PF13923	19 - 59	1.8e-07	Zinc finger, C3HC4 type (RING finger)
zf-C3HC4	PF00097	19 - 59	8.2e-07	Zinc finger, C3HC4 type (RING finger)
zf-RING_UBOX	PF13445	19 - 46	4.9e-06	RING-type zinc-finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

Font Size (px)

Line Width

Align Labels (Cladogram)

Image

Tree File

Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001656)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G06770 AT1G06770 AT1G06770 AT2G30580 AT2G30580 AT2G30580
fragaria_vesca	FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22360 FvH4_2g22400 FvH4_6g02710 FvH4_6g02710
malus_domestica	MD04G1225500.v1.1 MD05G1204700.v1.1 MD10G1191800.v1.1 MD12G1242500.v1.1
prunus_persica	Prupe.6G344100_v2.0.a1 Prupe.6G344100_v2.0.a1 Prupe.8G231300_v2.0.a1
pyrus_communis	pycom04g19880 pycom05g19090 pycom10g16540 pycom12g22160
rosa_chinensis	RchiOBHm_Chr3g0450721 RchiOBHm_Chr6g0289351
rosa_laevigata	RLG00000012310 RLG00000025707
rosa_multiflora	Rmu_sc0000078.1_g000029 Rmu_sc0041561.1_g000001
rosa_roxburghii	Rroxscaffold_6G00428390 Rroxscaffold_7G00179330
rosa_rugosa	Rorug02G0629900 Rorug02G0630000 Rorug06G0202900
rosa_samantha	Rh3AG030800 Rh3BG031300 Rh3CG030100 Rh3DG031000 Rh6AG313800 Rh6BG321300 Rh6CG327600 Rh6DG313200
rosa_wichuraiana	Rw3G002380 Rw6G027130

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	62
AciI	CCGC	2 cut(s)	59, 722
AclWI	GGATC	3 cut(s)	429, 442, 484
AcsI	RAATTY	1 cut(s)	755
AcuI	CTGAAG	1 cut(s)	282
AfaI	GTAC	2 cut(s)	164, 352
AfiI	CCNNNNNNNGG	1 cut(s)	871
AgsI	TTSAA	3 cut(s)	262, 760, 938
AjnI	CCWGG	3 cut(s)	372, 510, 542
AjuI	GAANNNNNNNTTGG	2 cut(s)	930, 962
AluBI	AGCT	6 cut(s)	73, 404, 507, 878, 908, 974
AluI	AGCT	6 cut(s)	73, 404, 507, 878, 908, 974
Alw26I	GTCTC	2 cut(s)	26, 687
AlwI	GGATC	3 cut(s)	429, 442, 484
AoxI	GGCC	5 cut(s)	84, 215, 243, 516, 545
ApeKI	GCWGC	1 cut(s)	920
ApoI	RAATTY	1 cut(s)	755
Asp700I	GAANNNNTTC	2 cut(s)	105, 418
AspS9I	GGNCC	3 cut(s)	243, 675, 950
AsuHPI	GGTGA	2 cut(s)	28, 286
AvaII	GGWCC	2 cut(s)	675, 950
BamHI	GGATCC	1 cut(s)	434
BanII	GRGCYC	1 cut(s)	862
BbsI	GAAGAC	1 cut(s)	98
BbvI	GCAGC	1 cut(s)	932
BccI	CCATC	1 cut(s)	614
BciT130I	CCWGG	3 cut(s)	374, 512, 544
BciVI	GTATCC	1 cut(s)	592
BcoDI	GTCTC	2 cut(s)	26, 687
BfaI	CTAG	2 cut(s)	312, 968
BfmI	CTRYAG	1 cut(s)	879
BfuAI	ACCTGC	1 cut(s)	62
BfuI	GTATCC	1 cut(s)	592
BisI	GCNGC	2 cut(s)	723, 921
BlsI	GCNGC	2 cut(s)	724, 922
BmcAI	AGTACT	2 cut(s)	164, 352
Bme1390I	CCNGG	3 cut(s)	374, 512, 544
Bme18I	GGWCC	2 cut(s)	675, 950
BmgT120I	GGNCC	3 cut(s)	243, 675, 950
BmiI	GGNNCC	1 cut(s)	436
BmrFI	CCNGG	3 cut(s)	374, 512, 544
BmrI	ACTGGG	1 cut(s)	564
BmsI	GCATC	1 cut(s)	907
BmuI	ACTGGG	1 cut(s)	564
BpiI	GAAGAC	1 cut(s)	98
BpmI	CTGGAG	1 cut(s)	533
BpuEI	CTTGAG	1 cut(s)	729
BsaJI	CCNNGG	3 cut(s)	201, 372, 510
BsaWI	WCCGGW	1 cut(s)	530
BsaXI	ACNNNNNCTCC	2 cut(s)	802, 832
Bsc4I	CCNNNNNNNGG	1 cut(s)	871
Bse118I	RCCGGY	1 cut(s)	307
Bse1I	ACTGG	4 cut(s)	391, 438, 570, 924
BseBI	CCWGG	3 cut(s)	374, 512, 544
BseDI	CCNNGG	3 cut(s)	201, 372, 510
BseGI	GGATG	4 cut(s)	625, 802, 814, 922
BseLI	CCNNNNNNNGG	1 cut(s)	871
BseMII	CTCAG	2 cut(s)	534, 588
BseNI	ACTGG	4 cut(s)	391, 438, 570, 924
BseXI	GCAGC	1 cut(s)	932
BshFI	GGCC	5 cut(s)	86, 217, 245, 518, 547
BsiSI	CCGG	2 cut(s)	308, 531
BslI	CCNNNNNNNGG	1 cut(s)	871
BsmAI	GTCTC	2 cut(s)	26, 687
BsmBI	CGTCTC	1 cut(s)	26
BsmI	GAATGC	1 cut(s)	283
BsnI	GGCC	5 cut(s)	86, 217, 245, 518, 547
Bsp1286I	GDGCHC	1 cut(s)	862
Bsp143I	GATC	6 cut(s)	141, 184, 326, 434, 476, 487
BspACI	CCGC	2 cut(s)	59, 722
BspANI	GGCC	5 cut(s)	86, 217, 245, 518, 547
BspCNI	CTCAG	2 cut(s)	533, 589
BspLI	GGNNCC	1 cut(s)	436
BspMI	ACCTGC	1 cut(s)	62
BspPI	GGATC	3 cut(s)	429, 442, 484
BsrFI	RCCGGY	1 cut(s)	307
BsrI	ACTGG	4 cut(s)	391, 438, 570, 924
BssAI	RCCGGY	1 cut(s)	307
BssECI	CCNNGG	3 cut(s)	201, 372, 510
BssMI	GATC	6 cut(s)	141, 184, 326, 434, 476, 487
BssT1I	CCWWGG	1 cut(s)	201
Bst2UI	CCWGG	3 cut(s)	374, 512, 544
Bst4CI	ACNGT	2 cut(s)	167, 987
Bst6I	CTCTTC	2 cut(s)	144, 937
BstAPI	GCANNNNNTGC	2 cut(s)	54, 126
BstC8I	GCNNGC	4 cut(s)	46, 59, 309, 862
BstDEI	CTNAG	2 cut(s)	520, 597
BstF5I	GGATG	4 cut(s)	625, 802, 814, 922
BstKTI	GATC	6 cut(s)	144, 187, 329, 437, 479, 490
BstMAI	GTCTC	2 cut(s)	26, 687
BstMBI	GATC	6 cut(s)	141, 184, 326, 434, 476, 487
BstMWI	GCNNNNNNNGC	5 cut(s)	54, 63, 126, 308, 416
BstNI	CCWGG	3 cut(s)	374, 512, 544
BstNSI	RCATGY	1 cut(s)	48
BstSCI	CCNGG	3 cut(s)	372, 510, 542
BstSFI	CTRYAG	1 cut(s)	879
BstV1I	GCAGC	1 cut(s)	932
BstV2I	GAAGAC	1 cut(s)	98
BstX2I	RGATCY	2 cut(s)	434, 476
BstXI	CCANNNNNNTGG	1 cut(s)	445
BstYI	RGATCY	2 cut(s)	434, 476
BsuI	GTATCC	1 cut(s)	592
BsuRI	GGCC	5 cut(s)	86, 217, 245, 518, 547
BtsCI	GGATG	4 cut(s)	625, 802, 814, 922
BtsI	GCAGTG	1 cut(s)	302
BtsIMutI	CAGTG	3 cut(s)	302, 577, 931
BveI	ACCTGC	1 cut(s)	62
Cac8I	GCNNGC	4 cut(s)	46, 59, 309, 862
Cfr10I	RCCGGY	1 cut(s)	307
Cfr13I	GGNCC	3 cut(s)	243, 675, 950
Csp6I	GTAC	2 cut(s)	163, 351
CviAII	CATG	5 cut(s)	45, 49, 382, 491, 615
CviQI	GTAC	2 cut(s)	163, 351
DdeI	CTNAG	2 cut(s)	520, 597
DpnI	GATC	6 cut(s)	143, 186, 328, 436, 478, 489
DpnII	GATC	6 cut(s)	141, 184, 326, 434, 476, 487
Eam1104I	CTCTTC	2 cut(s)	144, 937
EarI	CTCTTC	2 cut(s)	144, 937
Eco130I	CCWWGG	1 cut(s)	201
Eco147I	AGGCCT	2 cut(s)	217, 518
Eco24I	GRGCYC	1 cut(s)	862
Eco47I	GGWCC	2 cut(s)	675, 950
Eco57I	CTGAAG	1 cut(s)	282
EcoRII	CCWGG	3 cut(s)	372, 510, 542
EcoT14I	CCWWGG	1 cut(s)	201
EcoT22I	ATGCAT	1 cut(s)	50
EcoT38I	GRGCYC	1 cut(s)	862
ErhI	CCWWGG	1 cut(s)	201
Esp3I	CGTCTC	1 cut(s)	26
FaeI	CATG	5 cut(s)	48, 52, 385, 494, 618
FalI	AAGNNNNNCTT	2 cut(s)	403, 435
FatI	CATG	5 cut(s)	44, 48, 381, 490, 614
FauI	CCCGC	1 cut(s)	66
Fnu4HI	GCNGC	2 cut(s)	723, 921
FokI	GGATG	4 cut(s)	632, 801, 809, 929
FriOI	GRGCYC	1 cut(s)	862
Fsp4HI	GCNGC	2 cut(s)	723, 921
FspBI	CTAG	2 cut(s)	312, 968
GluI	GCNGC	2 cut(s)	723, 921
GsuI	CTGGAG	1 cut(s)	533
HaeIII	GGCC	5 cut(s)	86, 217, 245, 518, 547
HapII	CCGG	2 cut(s)	308, 531
Hin1II	CATG	5 cut(s)	48, 52, 385, 494, 618
HinfI	GANTC	4 cut(s)	7, 593, 611, 887
HpaII	CCGG	2 cut(s)	308, 531
HphI	GGTGA	2 cut(s)	28, 286
Hpy166II	GTNNAC	1 cut(s)	575
Hpy188I	TCNGA	8 cut(s)	80, 100, 523, 598, 675, 687, 709, 979
Hpy188III	TCNNGA	3 cut(s)	25, 760, 827
Hpy8I	GTNNAC	1 cut(s)	575
HpyAV	CCTTC	2 cut(s)	306, 384
HpyCH4III	ACNGT	2 cut(s)	167, 987
HpyCH4IV	ACGT	1 cut(s)	113
HpyF10VI	GCNNNNNNNGC	5 cut(s)	54, 63, 126, 308, 416
HpyF3I	CTNAG	2 cut(s)	520, 597
HpySE526I	ACGT	1 cut(s)	113
Hsp92II	CATG	5 cut(s)	48, 52, 385, 494, 618
KroI	GCCGGC	1 cut(s)	307
KroNI	GCCGGC	1 cut(s)	309
Kzo9I	GATC	6 cut(s)	141, 184, 326, 434, 476, 487
LmnI	GCTCC	1 cut(s)	512
Lsp1109I	GCAGC	1 cut(s)	932
LweI	GCATC	1 cut(s)	907
MaeI	CTAG	2 cut(s)	312, 968
MaeII	ACGT	1 cut(s)	113
MaeIII	GTNAC	1 cut(s)	895
MalI	GATC	6 cut(s)	143, 186, 328, 436, 478, 489
MboI	GATC	6 cut(s)	141, 184, 326, 434, 476, 487
MboII	GAAGA	6 cut(s)	98, 161, 279, 327, 497, 954
MflI	RGATCY	2 cut(s)	434, 476
MhlI	GDGCHC	1 cut(s)	862
MluCI	AATT	5 cut(s)	209, 649, 694, 755, 954
Mph1103I	ATGCAT	1 cut(s)	50
MroNI	GCCGGC	1 cut(s)	307
MroXI	GAANNNNTTC	2 cut(s)	105, 418
MseI	TTAA	2 cut(s)	212, 462
MspA1I	CMGCKG	1 cut(s)	61
MspI	CCGG	2 cut(s)	308, 531
MspR9I	CCNGG	3 cut(s)	374, 512, 544
Mva1269I	GAATGC	1 cut(s)	283
MvaI	CCWGG	3 cut(s)	374, 512, 544
MwoI	GCNNNNNNNGC	5 cut(s)	54, 63, 126, 308, 416
NaeI	GCCGGC	1 cut(s)	309
NdeII	GATC	6 cut(s)	141, 184, 326, 434, 476, 487
NgoMIV	GCCGGC	1 cut(s)	307
NlaIII	CATG	5 cut(s)	48, 52, 385, 494, 618
NlaIV	GGNNCC	1 cut(s)	436
NmeAIII	GCCGAG	1 cut(s)	573
NsiI	ATGCAT	1 cut(s)	50
NspI	RCATGY	1 cut(s)	48
PaeI	GCATGC	1 cut(s)	48
PceI	AGGCCT	2 cut(s)	217, 518
PctI	GAATGC	1 cut(s)	283
PdiI	GCCGGC	1 cut(s)	309
PdmI	GAANNNNTTC	2 cut(s)	105, 418
PfeI	GAWTC	4 cut(s)	7, 593, 611, 887
PflFI	GACNNNGTC	1 cut(s)	679
PkrI	GCNGC	2 cut(s)	724, 922
Psp6I	CCWGG	3 cut(s)	372, 510, 542
PspGI	CCWGG	3 cut(s)	372, 510, 542
PspN4I	GGNNCC	1 cut(s)	436
PspPI	GGNCC	3 cut(s)	243, 675, 950
PsuI	RGATCY	2 cut(s)	434, 476
PsyI	GACNNNGTC	1 cut(s)	679
RsaI	GTAC	2 cut(s)	164, 352
RsaNI	GTAC	2 cut(s)	163, 351
SaqAI	TTAA	2 cut(s)	212, 462
SatI	GCNGC	2 cut(s)	723, 921
Sau3AI	GATC	6 cut(s)	141, 184, 326, 434, 476, 487
Sau96I	GGNCC	3 cut(s)	243, 675, 950
ScaI	AGTACT	2 cut(s)	164, 352
ScrFI	CCNGG	3 cut(s)	374, 512, 544
SduI	GDGCHC	1 cut(s)	862
SfaNI	GCATC	1 cut(s)	907
SfcI	CTRYAG	1 cut(s)	879
SinI	GGWCC	2 cut(s)	675, 950
SmlI	CTYRAG	1 cut(s)	744
SmoI	CTYRAG	1 cut(s)	744
SphI	GCATGC	1 cut(s)	48
Sse9I	AATT	5 cut(s)	209, 649, 694, 755, 954
SseBI	AGGCCT	2 cut(s)	217, 518
SsiI	CCGC	2 cut(s)	59, 722
SspMI	CTAG	2 cut(s)	312, 968
StuI	AGGCCT	2 cut(s)	217, 518
StyD4I	CCNGG	3 cut(s)	372, 510, 542
StyI	CCWWGG	1 cut(s)	201
TaaI	ACNGT	2 cut(s)	167, 987
TaiI	ACGT	1 cut(s)	116
TaqI	TCGA	1 cut(s)	5
TasI	AATT	5 cut(s)	209, 649, 694, 755, 954
TatI	WGTACW	2 cut(s)	162, 350
TauI	GCSGC	1 cut(s)	725
TfiI	GAWTC	4 cut(s)	7, 593, 611, 887
Tru1I	TTAA	2 cut(s)	212, 462
Tru9I	TTAA	2 cut(s)	212, 462
TscAI	CASTG	3 cut(s)	309, 577, 931
TseI	GCWGC	1 cut(s)	920
TspDTI	ATGAA	3 cut(s)	98, 753, 813
TspGWI	ACGGA	2 cut(s)	161, 489
TspRI	CASTG	3 cut(s)	309, 577, 931
Tth111I	GACNNNGTC	1 cut(s)	679
VpaK11BI	GGWCC	2 cut(s)	675, 950
XapI	RAATTY	1 cut(s)	755
XceI	RCATGY	1 cut(s)	48
XmnI	GAANNNNTTC	2 cut(s)	105, 418
XspI	CTAG	2 cut(s)	312, 968
ZrmI	AGTACT	2 cut(s)	164, 352
Zsp2I	ATGCAT	1 cut(s)	50

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