Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0003179

Physical Location & Seq

Genomic Coordinates Reverse (-)

65279534 .. 65284320

Gene Structure 4787 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00331360.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 738 bp

ATGAACGGGAATGGACAAATGGAGGTGCATTACATAGACACCGGCTTCCCTTACACGGCTACTGAGAGCTTTATGGACTTCTTTGAAGGTCTTACTCATGCCCCCGTGAACTATGGTCACGTCATGCCCGTGCATGATCAGGCATCTGCATACTGGTCAATGAATATGCATTCCTACAAATTTGGACTCTCTGGTCCGGGGAGTACTTCTTATTATGGTCCTTATGAGGTAAATACTCATTTTCCGAGAATGGATATGAGCAGGAGGGCTTGGGAATATCCTTTAATGACGAATTCAGAAGAGCCTGCTACCACTGCTTCGCAATTAGAAGAAACTGTAGTCGAGGAAGTTGATGTCATAACCGAAGAATCCATTCCAAATGAGCAAAACACAAATACTTCTGAGGTGGAATGGGAAGAGAACATCGATCCTGATAACATGACATATGAGGAATTACTCGATTTGGGTGAGGCTGTTGGTACTCAAAGTCGAGGGCTTTCCGACGAACTTATTAGCTTGCTTCCCACAACCAAATACAAGTGTGGAAGCTTTTTCTCAAGAAAGAAATCTGGAGAGAGATGCGTAATTTGCCAGGCGAGGTACAAAAGAGGAGCTCGACAAATCAAATTGCCCTGCAATCATTTTTACCATAGCCAATGCATCAGCAAATGGCTCGGCATCAACAAGATATGCCCAGTCTGCAACCTTGAGGTATTCGCCGAGGAATCAAGGCATTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000003 GO:0003006 GO:0003674 GO:0003824 GO:0004842 GO:0005488 GO:0005515 GO:0006464 GO:0006508 GO:0006511 GO:0006807 GO:0007275 GO:0008150 GO:0008152 GO:0008285 GO:0009056 GO:0009057 GO:0009791 GO:0009908 GO:0009987 GO:0010498 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0019899 GO:0019941 GO:0022414 GO:0030163 GO:0031624 GO:0032446 GO:0032501 GO:0032502 GO:0036211 GO:0040008 GO:0042127 GO:0043161 GO:0043170 GO:0043412 GO:0043632 GO:0044237 GO:0044238 GO:0044248 GO:0044257 GO:0044260 GO:0044265 GO:0044267 GO:0044390 GO:0045926 GO:0046620 GO:0046621 GO:0048367 GO:0048437 GO:0048518 GO:0048519 GO:0048523 GO:0048608 GO:0048638 GO:0048640 GO:0048731 GO:0048831 GO:0048856 GO:0050789 GO:0050793 GO:0050794 GO:0051093 GO:0051094 GO:0051239 GO:0051240 GO:0051241 GO:0051603 GO:0051865 GO:0061458 GO:0061630 GO:0061659 GO:0065007 GO:0070647 GO:0071704 GO:0090567 GO:0099402 GO:0140096 GO:1900055 GO:1900057 GO:1901564 GO:1901565 GO:1901575 GO:1905623 GO:2000024 GO:2000026

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-RING_2

Protein Analysis

245

Amino Acids

27.96

Weight (kDa)

4.92

Isoelectric Point (pI)

43.98

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-rbx1	PF12678	186 - 235	3.4e-09	RING-H2 zinc finger domain
zf-RING_2	PF13639	193 - 235	5e-13	Ring finger domain
zf-C3HC4_2	PF13923	193 - 234	4.7e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_11	PF17123	194 - 221	2.1e-06	RING-like zinc finger
zf-C3HC4	PF00097	194 - 234	4.7e-06	Zinc finger, C3HC4 type (RING finger)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0003179)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G63530 AT3G63530
fragaria_vesca	FvH4_7g00970 FvH4_7g00970 FvH4_7g00970 FvH4_7g00970 FvH4_7g00970 FvH4_7g00970 FvH4_7g00970
malus_domestica	MD02G1313100.v1.1 MD07G1009300.v1.1
prunus_persica	Prupe.2G012300_v2.0.a1 Prupe.2G012300_v2.0.a1 Prupe.2G012300_v2.0.a1 Prupe.2G012300_v2.0.a1 Prupe.2G012300_v2.0.a1 Prupe.2G012300_v2.0.a1 Prupe.2G012300_v2.0.a1 Prupe.2G012300_v2.0.a1 Prupe.2G012300_v2.0.a1
pyrus_communis	pycom02g26270 pycom07g00780 pycom07g00830
rosa_chinensis	RchiOBHm_Chr1g0315871
rosa_laevigata	RLG00000030727
rosa_multiflora	Rmu_ssc0000154.1_g000014
rosa_roxburghii	Rroxscaffold_4G00331360
rosa_rugosa	Rorug01G0006300 Rorug01G0006400 Rorug01G0006500 Rorug01G0006600 Rorug01G0006700
rosa_samantha	Rh1AG017400 Rh1BG009900 Rh1CG014700 Rh1DG010300
rosa_wichuraiana	Rw1G001030

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AasI	GACNNNNNNGTC	1 cut(s)	192
AclWI	GGATC	1 cut(s)	422
AcsI	RAATTY	2 cut(s)	179, 292
AfaI	GTAC	3 cut(s)	205, 481, 602
AfiI	CCNNNNNNNGG	1 cut(s)	55
AgsI	TTSAA	1 cut(s)	86
AjiI	CACGTC	1 cut(s)	121
AjnI	CCWGG	1 cut(s)	591
AluBI	AGCT	4 cut(s)	69, 516, 549, 614
AluI	AGCT	4 cut(s)	69, 516, 549, 614
Alw21I	GWGCWC	1 cut(s)	616
AlwI	GGATC	1 cut(s)	422
ApoI	RAATTY	2 cut(s)	179, 292
Asp700I	GAANNNNTTC	1 cut(s)	372
AspS9I	GGNCC	2 cut(s)	194, 218
AsuC2I	CCSGG	1 cut(s)	198
AsuHPI	GGTGA	1 cut(s)	479
AvaII	GGWCC	2 cut(s)	194, 218
BanII	GRGCYC	1 cut(s)	616
Bbv12I	GWGCWC	1 cut(s)	616
BceAI	ACGGC	1 cut(s)	72
BcgI	CGANNNNNNTGC	2 cut(s)	655, 689
BciT130I	CCWGG	1 cut(s)	593
BclI	TGATCA	1 cut(s)	136
BcnI	CCSGG	1 cut(s)	198
BfmI	CTRYAG	1 cut(s)	336
BmcAI	AGTACT	1 cut(s)	205
Bme1390I	CCNGG	2 cut(s)	198, 593
Bme18I	GGWCC	2 cut(s)	194, 218
BmgBI	CACGTC	1 cut(s)	121
BmgT120I	GGNCC	2 cut(s)	194, 218
BmrFI	CCNGG	2 cut(s)	198, 593
BmrI	ACTGGG	1 cut(s)	689
BmsI	GCATC	4 cut(s)	152, 569, 669, 687
BmuI	ACTGGG	1 cut(s)	689
BpmI	CTGGAG	1 cut(s)	591
BpuEI	CTTGAG	2 cut(s)	541, 728
BpuMI	CCSGG	1 cut(s)	198
Bsa29I	ATCGAT	1 cut(s)	426
BsaJI	CCNNGG	2 cut(s)	197, 720
Bsc4I	CCNNNNNNNGG	1 cut(s)	55
Bse118I	RCCGGY	1 cut(s)	41
Bse1I	ACTGG	2 cut(s)	158, 695
BseBI	CCWGG	1 cut(s)	593
BseCI	ATCGAT	1 cut(s)	426
BseDI	CCNNGG	2 cut(s)	197, 720
BseLI	CCNNNNNNNGG	1 cut(s)	55
BseMII	CTCAG	2 cut(s)	54, 393
BseNI	ACTGG	2 cut(s)	158, 695
BseRI	GAGGAG	1 cut(s)	624
BshVI	ATCGAT	1 cut(s)	426
BsiHKAI	GWGCWC	1 cut(s)	616
BsiSI	CCGG	2 cut(s)	42, 197
BslI	CCNNNNNNNGG	1 cut(s)	55
BsmI	GAATGC	1 cut(s)	169
Bsp1286I	GDGCHC	1 cut(s)	616
Bsp143I	GATC	2 cut(s)	136, 427
BspCNI	CTCAG	2 cut(s)	55, 394
BspDI	ATCGAT	1 cut(s)	426
BspPI	GGATC	1 cut(s)	422
BspQI	GCTCTTC	1 cut(s)	294
BsrFI	RCCGGY	1 cut(s)	41
BsrI	ACTGG	2 cut(s)	158, 695
BssAI	RCCGGY	1 cut(s)	41
BssECI	CCNNGG	2 cut(s)	197, 720
BssMI	GATC	2 cut(s)	136, 427
Bst2UI	CCWGG	1 cut(s)	593
Bst4CI	ACNGT	1 cut(s)	337
Bst6I	CTCTTC	2 cut(s)	294, 411
BstC8I	GCNNGC	2 cut(s)	306, 518
BstDEI	CTNAG	2 cut(s)	63, 402
BstKTI	GATC	2 cut(s)	139, 430
BstMBI	GATC	2 cut(s)	136, 427
BstMWI	GCNNNNNNNGC	3 cut(s)	314, 588, 699
BstNI	CCWGG	1 cut(s)	593
BstSCI	CCNGG	2 cut(s)	196, 591
BstSFI	CTRYAG	1 cut(s)	336
Bsu15I	ATCGAT	1 cut(s)	426
BsuTUI	ATCGAT	1 cut(s)	426
BtrI	CACGTC	1 cut(s)	121
BtsI	GCAGTG	1 cut(s)	312
BtsIMutI	CAGTG	1 cut(s)	312
Cac8I	GCNNGC	2 cut(s)	306, 518
Cfr10I	RCCGGY	1 cut(s)	41
Cfr13I	GGNCC	2 cut(s)	194, 218
ClaI	ATCGAT	1 cut(s)	426
Csp6I	GTAC	3 cut(s)	204, 480, 601
CviAII	CATG	4 cut(s)	98, 124, 134, 439
CviQI	GTAC	3 cut(s)	204, 480, 601
DdeI	CTNAG	2 cut(s)	63, 402
DpnI	GATC	2 cut(s)	138, 429
DpnII	GATC	2 cut(s)	136, 427
DrdI	GACNNNNNNGTC	1 cut(s)	192
DseDI	GACNNNNNNGTC	1 cut(s)	192
Eam1104I	CTCTTC	2 cut(s)	294, 411
EarI	CTCTTC	2 cut(s)	294, 411
Ecl136II	GAGCTC	1 cut(s)	614
Eco24I	GRGCYC	1 cut(s)	616
Eco47I	GGWCC	2 cut(s)	194, 218
Eco53kI	GAGCTC	1 cut(s)	614
EcoICRI	GAGCTC	1 cut(s)	614
EcoRI	GAATTC	1 cut(s)	292
EcoRII	CCWGG	1 cut(s)	591
EcoT22I	ATGCAT	2 cut(s)	171, 662
EcoT38I	GRGCYC	1 cut(s)	616
FaeI	CATG	4 cut(s)	101, 127, 137, 442
FatI	CATG	4 cut(s)	97, 123, 133, 438
FauNDI	CATATG	1 cut(s)	445
FbaI	TGATCA	1 cut(s)	136
FriOI	GRGCYC	1 cut(s)	616
GsuI	CTGGAG	1 cut(s)	591
HapII	CCGG	2 cut(s)	42, 197
Hin1II	CATG	4 cut(s)	101, 127, 137, 442
HindIII	AAGCTT	1 cut(s)	547
HinfI	GANTC	3 cut(s)	186, 368, 725
HpaII	CCGG	2 cut(s)	42, 197
HphI	GGTGA	1 cut(s)	479
Hpy166II	GTNNAC	1 cut(s)	109
Hpy188I	TCNGA	4 cut(s)	246, 298, 403, 502
Hpy188III	TCNNGA	3 cut(s)	431, 558, 570
Hpy8I	GTNNAC	1 cut(s)	109
Hpy99I	CGWCG	1 cut(s)	506
HpyAV	CCTTC	1 cut(s)	80
HpyCH4III	ACNGT	1 cut(s)	337
HpyCH4IV	ACGT	1 cut(s)	120
HpyCH4V	TGCA	7 cut(s)	28, 133, 149, 169, 636, 660, 702
HpyF10VI	GCNNNNNNNGC	3 cut(s)	314, 588, 699
HpyF3I	CTNAG	2 cut(s)	63, 402
HpySE526I	ACGT	1 cut(s)	120
Hsp92II	CATG	4 cut(s)	101, 127, 137, 442
Ksp22I	TGATCA	1 cut(s)	136
Kzo9I	GATC	2 cut(s)	136, 427
LguI	GCTCTTC	1 cut(s)	294
LmnI	GCTCC	1 cut(s)	611
LweI	GCATC	4 cut(s)	152, 569, 669, 687
MaeII	ACGT	1 cut(s)	120
MaeIII	GTNAC	1 cut(s)	116
MalI	GATC	2 cut(s)	138, 429
MboI	GATC	2 cut(s)	136, 427
MboII	GAAGA	4 cut(s)	311, 341, 377, 428
MhlI	GDGCHC	1 cut(s)	616
MluCI	AATT	6 cut(s)	179, 292, 323, 452, 585, 626
MlyI	GAGTC	1 cut(s)	180
MmeI	TCCRAC	1 cut(s)	525
Mph1103I	ATGCAT	2 cut(s)	171, 662
MroXI	GAANNNNTTC	1 cut(s)	372
MseI	TTAA	2 cut(s)	284, 736
MslI	CAYNNNNRTG	1 cut(s)	128
MspI	CCGG	2 cut(s)	42, 197
MspR9I	CCNGG	2 cut(s)	198, 593
Mva1269I	GAATGC	1 cut(s)	169
MvaI	CCWGG	1 cut(s)	593
MwoI	GCNNNNNNNGC	3 cut(s)	314, 588, 699
NciI	CCSGG	1 cut(s)	198
NdeI	CATATG	1 cut(s)	445
NdeII	GATC	2 cut(s)	136, 427
NlaIII	CATG	4 cut(s)	101, 127, 137, 442
NmeAIII	GCCGAG	1 cut(s)	654
NmuCI	GTSAC	1 cut(s)	116
NsiI	ATGCAT	2 cut(s)	171, 662
PciSI	GCTCTTC	1 cut(s)	294
PcsI	WCGNNNNNNNCGW	1 cut(s)	126
PctI	GAATGC	1 cut(s)	169
PdmI	GAANNNNTTC	1 cut(s)	372
PfeI	GAWTC	2 cut(s)	368, 725
PleI	GAGTC	1 cut(s)	180
PpsI	GAGTC	1 cut(s)	180
Psp124BI	GAGCTC	1 cut(s)	616
Psp6I	CCWGG	1 cut(s)	591
PspGI	CCWGG	1 cut(s)	591
PspPI	GGNCC	2 cut(s)	194, 218
RsaI	GTAC	3 cut(s)	205, 481, 602
RsaNI	GTAC	3 cut(s)	204, 480, 601
RseI	CAYNNNNRTG	1 cut(s)	128
SacI	GAGCTC	1 cut(s)	616
SapI	GCTCTTC	1 cut(s)	294
SaqAI	TTAA	2 cut(s)	284, 736
Sau3AI	GATC	2 cut(s)	136, 427
Sau96I	GGNCC	2 cut(s)	194, 218
ScaI	AGTACT	1 cut(s)	205
SchI	GAGTC	1 cut(s)	180
ScrFI	CCNGG	2 cut(s)	198, 593
SduI	GDGCHC	1 cut(s)	616
SfaNI	GCATC	4 cut(s)	152, 569, 669, 687
SfcI	CTRYAG	1 cut(s)	336
SinI	GGWCC	2 cut(s)	194, 218
SmiMI	CAYNNNNRTG	1 cut(s)	128
SmlI	CTYRAG	2 cut(s)	556, 707
SmoI	CTYRAG	2 cut(s)	556, 707
Sse9I	AATT	6 cut(s)	179, 292, 323, 452, 585, 626
SstI	GAGCTC	1 cut(s)	616
StyD4I	CCNGG	2 cut(s)	196, 591
TaaI	ACNGT	1 cut(s)	337
TaiI	ACGT	1 cut(s)	123
TaqI	TCGA	5 cut(s)	342, 426, 459, 490, 616
TasI	AATT	6 cut(s)	179, 292, 323, 452, 585, 626
TatI	WGTACW	1 cut(s)	203
TfiI	GAWTC	2 cut(s)	368, 725
Tru1I	TTAA	2 cut(s)	284, 736
Tru9I	TTAA	2 cut(s)	284, 736
TscAI	CASTG	1 cut(s)	319
TseFI	GTSAC	1 cut(s)	116
Tsp45I	GTSAC	1 cut(s)	116
TspDTI	ATGAA	2 cut(s)	17, 176
TspRI	CASTG	1 cut(s)	319
VpaK11BI	GGWCC	2 cut(s)	194, 218
XapI	RAATTY	2 cut(s)	179, 292
XmnI	GAANNNNTTC	1 cut(s)	372
ZrmI	AGTACT	1 cut(s)	205
Zsp2I	ATGCAT	2 cut(s)	171, 662

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