Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0000735

Physical Location & Seq

Genomic Coordinates Reverse (-)

64647736 .. 64648695

Gene Structure 960 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG408400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 648 bp

ATGTCCATGGCTACTGAAAATTGGCAAGTGGTGGGTGACATCACCTGCAACCCAAAATACCTAGGTCTTGTTCAACCTGCAAAGGAGCTGCCTAACACCAAATTCTTGATGGATTTCAATGTCAAGATGAGGCGCGCGCAGTCTACTGTATTGGAGGATGATGAAGAAATTGTAGAAGAGAAGAATCTGCGGTCAGTCGAACTTGAGTACAATCCACATAGCATGTGGGTTGCCATAAATAAAGAGCTTCAAGACCTGCAAATTCCAATCCAAGTTCGTGCAGCCATTGAAGATCCAATACTCAAGGGAACCAGAGTCGCACGCGCCGATAGCTCTTATGACGCTCGCAAGTATCTGCATATGGAGGTGGCTATCGATTTTCGTGTTGGCGTTTTTGATGGTATTAGTGAATATGAACCTGCGTTTGTGCCGGCAAGTGAAGCGTCCATTAAGAAACTGGGGAAGACAAGAGCTGAAGTGTCGTCGACAATGTGCACGGTTTGTATGGAGGAGATGATGGTTGGCTCGGAAGCGACTCGTATGCCTTGTTCCCATCTTTACCATGACAATTGCATTGTAGAGTGGCTGCAGAAAAGTGGGGTTTGCCCATCCTGTAAGTTCCGCATGCCCACTGATGATGATGAATGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

zf-RING_2 zf-rbx1

Protein Analysis

215

Amino Acids

24.42

Weight (kDa)

4.92

Isoelectric Point (pI)

53.89

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
zf-RING_2	PF13639	164 - 206	4.3e-13	Ring finger domain
zf-C3HC4_2	PF13923	164 - 205	8.3e-08	Zinc finger, C3HC4 type (RING finger)
zf-RING_11	PF17123	165 - 192	7.1e-09	RING-like zinc finger
zf-C3HC4	PF00097	165 - 205	5.5e-07	Zinc finger, C3HC4 type (RING finger)
zf-rbx1	PF12678	165 - 206	2.6e-06	RING-H2 zinc finger domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0000735)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_6g31481 FvH4_6g45550 FvH4_6g45551 FvH4_6g45560
malus_domestica	MD02G1237700.v1.1 MD02G1241100.v1.1 MD07G1074200.v1.1 MD07G1074300.v1.1 MD07G1077200.v1.1 MD09G1258700.v1.1
prunus_persica	Prupe.2G094100_v2.0.a1 Prupe.2G096300_v2.0.a1 Prupe.2G096400_v2.0.a1 Prupe.5G061200_v2.0.a1 Prupe.5G067900_v2.0.a1
pyrus_communis	pycom02g20840 pycom07g05830 pycom07g06070 pycom07g06080
rosa_chinensis	RchiOBHm_Chr1g0336601 RchiOBHm_Chr2g0163491 RchiOBHm_Chr5g0058471 RchiOBHm_Chr7g0236931
rosa_laevigata	RLG00000001047 RLG00000021406 RLG00000029344 RLG00000035224 RLG00000035225 RLG00000035226 RLG00000036678
rosa_multiflora	Rmu_co8414615.1_g000001 Rmu_sc0000367.1_g000124 Rmu_sc0000367.1_g000131 Rmu_sc0001969.1_g000007 Rmu_sc0004006.1_g000003 Rmu_sc0005576.1_g000003 Rmu_sc0008383.1_g000007 Rmu_sc0013124.1_g000008 Rmu_sc0024363.1_g000004 Rmu_ssc0000335.1_g000002
rosa_roxburghii	Rroxscaffold_1G00004750 Rroxscaffold_1G00022030 Rroxscaffold_1G00022050 Rroxscaffold_1G00022060 Rroxscaffold_2G00087240 Rroxscaffold_2G00087270 Rroxscaffold_3G00224680
rosa_rugosa	Rorug04G0097000 Rorug05G0315100 Rorug05G0315200 Rorug05G0315400 Rorug05G0453100 Rorug07G0301000
rosa_samantha	Rh1DG154700 Rh2AG570200 Rh2BG582400 Rh2CG552200 Rh4CG163700 Rh5AG381500 Rh5BG393100 Rh5CG417300 Rh5DG408300 Rh5DG408400 Rh5DG541900 Rh7AG456000 Rh7BG427300 Rh7CG474800 Rh7DG443900
rosa_wichuraiana	Rw1G011960 Rw2G047210 Rw5G035950 Rw7G037850

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	53
Acc36I	ACCTGC	4 cut(s)	53, 85, 264, 427
AccI	GTMKAC	2 cut(s)	143, 485
AccII	CGCG	3 cut(s)	135, 137, 324
AciI	CCGC	2 cut(s)	190, 622
AclWI	GGATC	1 cut(s)	287
AcsI	RAATTY	2 cut(s)	101, 261
AcuI	CTGAAG	1 cut(s)	495
AfaI	GTAC	1 cut(s)	209
AgsI	TTSAA	4 cut(s)	74, 118, 251, 290
AluBI	AGCT	4 cut(s)	88, 247, 333, 473
AluI	AGCT	4 cut(s)	88, 247, 333, 473
Alw21I	GWGCWC	1 cut(s)	497
Alw44I	GTGCAC	1 cut(s)	493
AlwI	GGATC	1 cut(s)	287
ApaLI	GTGCAC	1 cut(s)	493
ApeKI	GCWGC	3 cut(s)	88, 281, 586
ApoI	RAATTY	2 cut(s)	101, 261
AspA2I	CCTAGG	1 cut(s)	61
AspLEI	GCGC	4 cut(s)	135, 137, 139, 326
AsuHPI	GGTGA	2 cut(s)	34, 47
AvrII	CCTAGG	1 cut(s)	61
BaeGI	GKGCMC	1 cut(s)	497
BarI	GAAGNNNNNNTAC	2 cut(s)	282, 314
BbsI	GAAGAC	1 cut(s)	470
Bbv12I	GWGCWC	1 cut(s)	497
BbvI	GCAGC	3 cut(s)	75, 293, 573
BccI	CCATC	5 cut(s)	103, 392, 511, 561, 616
BcgI	CGANNNNNNTGC	2 cut(s)	523, 557
BfaI	CTAG	1 cut(s)	62
BfmI	CTRYAG	1 cut(s)	587
BfuAI	ACCTGC	4 cut(s)	53, 85, 264, 427
BisI	GCNGC	3 cut(s)	89, 282, 587
BlnI	CCTAGG	1 cut(s)	61
BlsI	GCNGC	3 cut(s)	90, 283, 588
BmiI	GGNNCC	1 cut(s)	310
BmrI	ACTGGG	1 cut(s)	467
BmuI	ACTGGG	1 cut(s)	467
BpiI	GAAGAC	1 cut(s)	470
BpuEI	CTTGAG	2 cut(s)	224, 287
Bsa29I	ATCGAT	1 cut(s)	375
BsaJI	CCNNGG	2 cut(s)	6, 61
Bse118I	RCCGGY	1 cut(s)	430
Bse1I	ACTGG	1 cut(s)	462
BseCI	ATCGAT	1 cut(s)	375
BseDI	CCNNGG	2 cut(s)	6, 61
BseGI	GGATG	2 cut(s)	163, 608
BseNI	ACTGG	1 cut(s)	462
BsePI	GCGCGC	2 cut(s)	133, 135
BseRI	GAGGAG	1 cut(s)	524
BseSI	GKGCMC	1 cut(s)	497
BseXI	GCAGC	3 cut(s)	75, 293, 573
BsgI	GTGCAG	1 cut(s)	300
Bsh1236I	CGCG	3 cut(s)	135, 137, 324
BshVI	ATCGAT	1 cut(s)	375
BsiHKAI	GWGCWC	1 cut(s)	497
BsiSI	CCGG	1 cut(s)	431
Bsp1286I	GDGCHC	1 cut(s)	497
Bsp143I	GATC	1 cut(s)	292
Bsp19I	CCATGG	1 cut(s)	6
BspACI	CCGC	2 cut(s)	190, 622
BspDI	ATCGAT	1 cut(s)	375
BspFNI	CGCG	3 cut(s)	135, 137, 324
BspLI	GGNNCC	1 cut(s)	310
BspMAI	CTGCAG	1 cut(s)	591
BspMI	ACCTGC	4 cut(s)	53, 85, 264, 427
BspPI	GGATC	1 cut(s)	287
BsrFI	RCCGGY	1 cut(s)	430
BsrI	ACTGG	1 cut(s)	462
BssAI	RCCGGY	1 cut(s)	430
BssECI	CCNNGG	2 cut(s)	6, 61
BssHII	GCGCGC	2 cut(s)	133, 135
BssMI	GATC	1 cut(s)	292
BssT1I	CCWWGG	2 cut(s)	6, 61
Bst4CI	ACNGT	2 cut(s)	148, 499
Bst6I	CTCTTC	1 cut(s)	171
BstC8I	GCNNGC	6 cut(s)	135, 137, 322, 346, 432, 626
BstDSI	CCRYGG	1 cut(s)	6
BstF5I	GGATG	2 cut(s)	163, 608
BstFNI	CGCG	3 cut(s)	135, 137, 324
BstHHI	GCGC	4 cut(s)	135, 137, 139, 326
BstKTI	GATC	1 cut(s)	295
BstMBI	GATC	1 cut(s)	292
BstMWI	GCNNNNNNNGC	2 cut(s)	330, 440
BstNSI	RCATGY	2 cut(s)	226, 628
BstSFI	CTRYAG	1 cut(s)	587
BstSLI	GKGCMC	1 cut(s)	497
BstUI	CGCG	3 cut(s)	135, 137, 324
BstV1I	GCAGC	3 cut(s)	75, 293, 573
BstV2I	GAAGAC	1 cut(s)	470
BstX2I	RGATCY	1 cut(s)	292
BstYI	RGATCY	1 cut(s)	292
Bsu15I	ATCGAT	1 cut(s)	375
BsuTUI	ATCGAT	1 cut(s)	375
BtgI	CCRYGG	1 cut(s)	6
BtsCI	GGATG	2 cut(s)	163, 608
BtsIMutI	CAGTG	1 cut(s)	630
BveI	ACCTGC	4 cut(s)	53, 85, 264, 427
Cac8I	GCNNGC	6 cut(s)	135, 137, 322, 346, 432, 626
CfoI	GCGC	4 cut(s)	135, 137, 139, 326
Cfr10I	RCCGGY	1 cut(s)	430
ClaI	ATCGAT	1 cut(s)	375
CseI	GACGC	2 cut(s)	350, 432
Csp6I	GTAC	1 cut(s)	208
CviAII	CATG	4 cut(s)	7, 223, 563, 625
CviJI	RGCY	9 cut(s)	11, 88, 247, 284, 333, 371, 473, 525, 586
CviKI_1	RGCY	9 cut(s)	11, 88, 247, 284, 333, 371, 473, 525, 586
CviQI	GTAC	1 cut(s)	208
DpnI	GATC	1 cut(s)	294
DpnII	GATC	1 cut(s)	292
Eam1104I	CTCTTC	1 cut(s)	171
EarI	CTCTTC	1 cut(s)	171
Eco130I	CCWWGG	2 cut(s)	6, 61
Eco57I	CTGAAG	1 cut(s)	495
EcoT14I	CCWWGG	2 cut(s)	6, 61
ErhI	CCWWGG	2 cut(s)	6, 61
FaeI	CATG	4 cut(s)	10, 226, 566, 628
FatI	CATG	4 cut(s)	6, 222, 562, 624
FauNDI	CATATG	1 cut(s)	360
FblI	GTMKAC	2 cut(s)	143, 485
Fnu4HI	GCNGC	3 cut(s)	89, 282, 587
FokI	GGATG	2 cut(s)	170, 595
Fsp4HI	GCNGC	3 cut(s)	89, 282, 587
FspBI	CTAG	1 cut(s)	62
GlaI	GCGC	4 cut(s)	134, 136, 138, 325
GluI	GCNGC	3 cut(s)	89, 282, 587
HapII	CCGG	1 cut(s)	431
HgaI	GACGC	2 cut(s)	350, 432
HhaI	GCGC	4 cut(s)	135, 137, 139, 326
Hin1II	CATG	4 cut(s)	10, 226, 566, 628
Hin6I	GCGC	4 cut(s)	133, 135, 137, 324
HinP1I	GCGC	4 cut(s)	133, 135, 137, 324
HincII	GTYRAC	1 cut(s)	486
HindII	GTYRAC	1 cut(s)	486
HinfI	GANTC	3 cut(s)	184, 315, 535
HpaII	CCGG	1 cut(s)	431
HphI	GGTGA	2 cut(s)	34, 47
Hpy166II	GTNNAC	3 cut(s)	144, 486, 495
Hpy188I	TCNGA	1 cut(s)	529
Hpy188III	TCNNGA	3 cut(s)	106, 124, 251
Hpy8I	GTNNAC	3 cut(s)	144, 486, 495
Hpy99I	CGWCG	1 cut(s)	487
HpyCH4III	ACNGT	2 cut(s)	148, 499
HpyCH4V	TGCA	8 cut(s)	48, 80, 259, 281, 358, 495, 573, 589
HpyF10VI	GCNNNNNNNGC	2 cut(s)	330, 440
Hsp92II	CATG	4 cut(s)	10, 226, 566, 628
HspAI	GCGC	4 cut(s)	133, 135, 137, 324
KroI	GCCGGC	1 cut(s)	430
KroNI	GCCGGC	1 cut(s)	432
Kzo9I	GATC	1 cut(s)	292
LmnI	GCTCC	1 cut(s)	85
LpnPI	CCDG	8 cut(s)	58, 90, 269, 325, 432, 443, 444, 625
Lsp1109I	GCAGC	3 cut(s)	75, 293, 573
MaeI	CTAG	1 cut(s)	62
MaeIII	GTNAC	1 cut(s)	35
MalI	GATC	1 cut(s)	294
MboI	GATC	1 cut(s)	292
MboII	GAAGA	5 cut(s)	176, 188, 193, 302, 475
MfeI	CAATTG	1 cut(s)	568
MflI	RGATCY	1 cut(s)	292
MhlI	GDGCHC	1 cut(s)	497
MluCI	AATT	5 cut(s)	19, 101, 168, 261, 568
MlyI	GAGTC	2 cut(s)	324, 529
MnlI	CCTC	4 cut(s)	123, 148, 358, 502
MroNI	GCCGGC	1 cut(s)	430
MseI	TTAA	1 cut(s)	450
MspI	CCGG	1 cut(s)	431
MunI	CAATTG	1 cut(s)	568
MvnI	CGCG	3 cut(s)	135, 137, 324
MwoI	GCNNNNNNNGC	2 cut(s)	330, 440
NaeI	GCCGGC	1 cut(s)	432
NcoI	CCATGG	1 cut(s)	6
NdeI	CATATG	1 cut(s)	360
NdeII	GATC	1 cut(s)	292
NgoMIV	GCCGGC	1 cut(s)	430
NlaIII	CATG	4 cut(s)	10, 226, 566, 628
NlaIV	GGNNCC	1 cut(s)	310
NmuCI	GTSAC	1 cut(s)	35
NspI	RCATGY	2 cut(s)	226, 628
PaeI	GCATGC	1 cut(s)	628
PaqCI	CACCTGC	1 cut(s)	53
PauI	GCGCGC	2 cut(s)	133, 135
PcsI	WCGNNNNNNNCGW	1 cut(s)	324
PdiI	GCCGGC	1 cut(s)	432
PfeI	GAWTC	1 cut(s)	184
PkrI	GCNGC	3 cut(s)	90, 283, 588
PleI	GAGTC	2 cut(s)	323, 529
PpsI	GAGTC	2 cut(s)	323, 529
PspN4I	GGNNCC	1 cut(s)	310
PsrI	GAACNNNNNNTAC	2 cut(s)	532, 564
PstI	CTGCAG	1 cut(s)	591
PsuI	RGATCY	1 cut(s)	292
PteI	GCGCGC	2 cut(s)	133, 135
RsaI	GTAC	1 cut(s)	209
RsaNI	GTAC	1 cut(s)	208
SalI	GTCGAC	1 cut(s)	484
SaqAI	TTAA	1 cut(s)	450
SatI	GCNGC	3 cut(s)	89, 282, 587
Sau3AI	GATC	1 cut(s)	292
SchI	GAGTC	2 cut(s)	324, 529
SduI	GDGCHC	1 cut(s)	497
SfcI	CTRYAG	1 cut(s)	587
SmlI	CTYRAG	2 cut(s)	203, 302
SmoI	CTYRAG	2 cut(s)	203, 302
SphI	GCATGC	1 cut(s)	628
Sse9I	AATT	5 cut(s)	19, 101, 168, 261, 568
SsiI	CCGC	2 cut(s)	190, 622
SspMI	CTAG	1 cut(s)	62
StyI	CCWWGG	2 cut(s)	6, 61
TaaI	ACNGT	2 cut(s)	148, 499
TaqI	TCGA	3 cut(s)	198, 375, 485
TasI	AATT	5 cut(s)	19, 101, 168, 261, 568
TatI	WGTACW	1 cut(s)	207
TfiI	GAWTC	1 cut(s)	184
Tru1I	TTAA	1 cut(s)	450
Tru9I	TTAA	1 cut(s)	450
TscAI	CASTG	1 cut(s)	637
TseFI	GTSAC	1 cut(s)	35
TseI	GCWGC	3 cut(s)	88, 281, 586
Tsp45I	GTSAC	1 cut(s)	35
TspDTI	ATGAA	2 cut(s)	177, 429
TspRI	CASTG	1 cut(s)	637
VneI	GTGCAC	1 cut(s)	493
XapI	RAATTY	2 cut(s)	101, 261
XceI	RCATGY	2 cut(s)	226, 628
XcmI	CCANNNNNNNNNTGG	3 cut(s)	106, 222, 454
XmaJI	CCTAGG	1 cut(s)	61
XmiI	GTMKAC	2 cut(s)	143, 485
XspI	CTAG	1 cut(s)	62

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