Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001131

Physical Location & Seq

Genomic Coordinates Forward (+)

71801187 .. 71801843

Gene Structure 657 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG450300.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 417 bp

ATGGATGACAATCTTTCTGAGGCAAGTGATTCGGATTTATGCTGCATATGCTTTGAGCAGGTGTGCACAATTGAGGTCCAGAATTGTGGCCACCAAATGTGTGCGCAATGCACTCTAGCCCTCTGCTGCCACAACAAGCCTAACCCTAATACACTATGCCTAACCCCGCCAGTTTGCCCTTTCTGCCGAAGCACCATAGCCTGTCTGGTGGTGGCAAAGATCAAAAGTCATGATGATGCTGATCTTGACACTGGTGACAACATCTCCTCCAAGCTAAGAAAGGCAAGAAAGTCCCGAAACTTCAGCGAGGGTAGCAGCAGCTTCAAGAGCTTGTCGGCAATGAATTCGTTCGGAAAACTGGGTGGTCGTGGCTCAGGAAGGATTGTTGCAGAGAATGAGTGGGCTGACAAGCCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004842 GO:0006464 GO:0006807 GO:0006950 GO:0006952 GO:0008150 GO:0008152 GO:0009605 GO:0009607 GO:0009617 GO:0009987 GO:0016567 GO:0016740 GO:0019538 GO:0019787 GO:0032446 GO:0036211 GO:0042742 GO:0043170 GO:0043207 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0050896 GO:0051704 GO:0051707 GO:0051865 GO:0070647 GO:0071704 GO:0098542 GO:0140096 GO:1901564

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

Ank Ank_2 Ank_3 Ank_4 Ank_5

Protein Analysis

138

Amino Acids

14.91

Weight (kDa)

6.26

Isoelectric Point (pI)

40.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
RING_XB3-XBAT31	PF24921	13 - 67	1.7e-21	E3 ubiquitin-protein ligase XB3/XBAT31 RING finger

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0001131)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G28840 AT2G28840
fragaria_vesca	FvH4_3g35930 FvH4_6g13990 FvH4_6g13990 FvH4_6g13990
malus_domestica	MD03G1096100.v1.1 MD04G1126800.v1.1 MD11G1110600.v1.1 MD12G1078200.v1.1
prunus_persica	Prupe.6G079100_v2.0.a1 Prupe.6G253500_v2.0.a1 Prupe.6G253500_v2.0.a1
pyrus_communis	pycom03g07860 pycom04g11370 pycom11g09140 pycom12g13520
rosa_chinensis	RchiOBHm_Chr1g0314361 RchiOBHm_Chr1g0357421 RchiOBHm_Chr2g0133681 RchiOBHm_Chr3g0466811 RchiOBHm_Chr3g0487431 RchiOBHm_Chr5g0038661 RchiOBHm_Chr5g0051561 RchiOBHm_Chr5g0064211
rosa_laevigata	RLG00000024550 RLG00000035712
rosa_multiflora	Rmu_sc0000147.1_g000071 Rmu_sc0000259.1_g000037 Rmu_sc0000259.1_g000038 Rmu_sc0000924.1_g000027 Rmu_sc0008017.1_g000003 Rmu_sc0011921.1_g000015 Rmu_ssc0000170.1_g000007
rosa_roxburghii	Rroxscaffold_1G00016740 Rroxscaffold_1G00038780 Rroxscaffold_4G00300840 Rroxscaffold_6G00414120
rosa_rugosa	Rorug03G0083800 Rorug05G0363400
rosa_samantha	Rh2AG384600 Rh2BG197500 Rh2BG371900 Rh2BG492700 Rh2DG501500 Rh3AG131400 Rh3BG152500 Rh3DG153600 Rh5AG421300 Rh5BG362000 Rh5BG436900 Rh5CG459600 Rh5DG450300 Rh6DG133300 Rh7AG222900
rosa_wichuraiana	Rw2G039230 Rw3G012420 Rw5G039670

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AarI	CACCTGC	1 cut(s)	49
Acc16I	TGCGCA	1 cut(s)	105
Acc36I	ACCTGC	1 cut(s)	49
AciI	CCGC	1 cut(s)	167
AcoI	YGGCCR	1 cut(s)	88
AcsI	RAATTY	1 cut(s)	343
AcuI	CTGAAG	1 cut(s)	286
AgsI	TTSAA	1 cut(s)	325
AluBI	AGCT	3 cut(s)	274, 321, 330
AluI	AGCT	3 cut(s)	274, 321, 330
Alw21I	GWGCWC	1 cut(s)	68
Alw44I	GTGCAC	1 cut(s)	64
AoxI	GGCC	1 cut(s)	88
ApaLI	GTGCAC	1 cut(s)	64
ApeKI	GCWGC	4 cut(s)	42, 126, 315, 318
ApoI	RAATTY	1 cut(s)	343
Asp700I	GAANNNNTTC	1 cut(s)	347
AspLEI	GCGC	1 cut(s)	106
AspS9I	GGNCC	1 cut(s)	76
AsuHPI	GGTGA	1 cut(s)	266
AvaII	GGWCC	1 cut(s)	76
BaeGI	GKGCMC	1 cut(s)	68
BalI	TGGCCA	1 cut(s)	90
Bbv12I	GWGCWC	1 cut(s)	68
BbvI	GCAGC	4 cut(s)	29, 113, 327, 330
BcgI	CGANNNNNNTGC	4 cut(s)	12, 46, 327, 361
BfaI	CTAG	1 cut(s)	116
BfuAI	ACCTGC	1 cut(s)	49
BisI	GCNGC	4 cut(s)	43, 127, 316, 319
BlsI	GCNGC	4 cut(s)	44, 128, 317, 320
Bme18I	GGWCC	1 cut(s)	76
BmgT120I	GGNCC	1 cut(s)	76
BmrI	ACTGGG	1 cut(s)	368
BmsI	GCATC	1 cut(s)	226
BmuI	ACTGGG	1 cut(s)	368
Bpu10I	CCTNAGC	1 cut(s)	373
BsaBI	GATNNNNATC	2 cut(s)	9, 240
BsaXI	ACNNNNNCTCC	4 cut(s)	248, 251, 278, 281
Bse1I	ACTGG	3 cut(s)	170, 256, 363
Bse3DI	GCAATG	2 cut(s)	113, 345
Bse8I	GATNNNNATC	2 cut(s)	9, 240
BseGI	GGATG	1 cut(s)	10
BseJI	GATNNNNATC	2 cut(s)	9, 240
BseMI	GCAATG	2 cut(s)	113, 345
BseMII	CTCAG	2 cut(s)	9, 387
BseNI	ACTGG	3 cut(s)	170, 256, 363
BseRI	GAGGAG	1 cut(s)	256
BseSI	GKGCMC	1 cut(s)	68
BseXI	GCAGC	4 cut(s)	29, 113, 327, 330
BshFI	GGCC	1 cut(s)	90
BsiHKAI	GWGCWC	1 cut(s)	68
BslFI	GGGAC	1 cut(s)	277
BsmFI	GGGAC	1 cut(s)	277
BsnI	GGCC	1 cut(s)	90
Bsp1286I	GDGCHC	1 cut(s)	68
Bsp143I	GATC	2 cut(s)	219, 241
BspACI	CCGC	1 cut(s)	167
BspANI	GGCC	1 cut(s)	90
BspCNI	CTCAG	2 cut(s)	10, 386
BspHI	TCATGA	1 cut(s)	229
BspMI	ACCTGC	1 cut(s)	49
BsrDI	GCAATG	2 cut(s)	113, 345
BsrI	ACTGG	3 cut(s)	170, 256, 363
BssMI	GATC	2 cut(s)	219, 241
BstDEI	CTNAG	3 cut(s)	18, 275, 373
BstF5I	GGATG	1 cut(s)	10
BstHHI	GCGC	1 cut(s)	106
BstKTI	GATC	2 cut(s)	222, 244
BstMBI	GATC	2 cut(s)	219, 241
BstMWI	GCNNNNNNNGC	4 cut(s)	48, 183, 312, 327
BstSLI	GKGCMC	1 cut(s)	68
BstV1I	GCAGC	4 cut(s)	29, 113, 327, 330
BstXI	CCANNNNNNTGG	1 cut(s)	86
BsuRI	GGCC	1 cut(s)	90
BtsCI	GGATG	1 cut(s)	10
BtsIMutI	CAGTG	1 cut(s)	249
BveI	ACCTGC	1 cut(s)	49
CciI	TCATGA	1 cut(s)	229
CfoI	GCGC	1 cut(s)	106
Cfr13I	GGNCC	1 cut(s)	76
CviAII	CATG	1 cut(s)	230
DdeI	CTNAG	3 cut(s)	18, 275, 373
DpnI	GATC	2 cut(s)	221, 243
DpnII	GATC	2 cut(s)	219, 241
EaeI	YGGCCR	1 cut(s)	88
Eco47I	GGWCC	1 cut(s)	76
Eco57I	CTGAAG	1 cut(s)	286
EcoRI	GAATTC	1 cut(s)	343
FaeI	CATG	1 cut(s)	233
FaiI	YATR	6 cut(s)	40, 47, 49, 157, 197, 231
FaqI	GGGAC	1 cut(s)	277
FatI	CATG	1 cut(s)	229
FauI	CCCGC	1 cut(s)	174
FauNDI	CATATG	1 cut(s)	47
Fnu4HI	GCNGC	4 cut(s)	43, 127, 316, 319
FokI	GGATG	1 cut(s)	17
Fsp4HI	GCNGC	4 cut(s)	43, 127, 316, 319
FspBI	CTAG	1 cut(s)	116
FspI	TGCGCA	1 cut(s)	105
GlaI	GCGC	1 cut(s)	105
GluI	GCNGC	4 cut(s)	43, 127, 316, 319
HaeIII	GGCC	1 cut(s)	90
HhaI	GCGC	1 cut(s)	106
Hin1II	CATG	1 cut(s)	233
Hin6I	GCGC	1 cut(s)	104
HinP1I	GCGC	1 cut(s)	104
HinfI	GANTC	1 cut(s)	29
HphI	GGTGA	1 cut(s)	266
Hpy166II	GTNNAC	1 cut(s)	66
Hpy188I	TCNGA	3 cut(s)	19, 34, 353
Hpy188III	TCNNGA	6 cut(s)	79, 230, 245, 294, 325, 375
Hpy8I	GTNNAC	1 cut(s)	66
HpyAV	CCTTC	1 cut(s)	372
HpyCH4V	TGCA	4 cut(s)	45, 66, 111, 389
HpyF10VI	GCNNNNNNNGC	4 cut(s)	48, 183, 312, 327
HpyF3I	CTNAG	3 cut(s)	18, 275, 373
Hsp92II	CATG	1 cut(s)	233
HspAI	GCGC	1 cut(s)	104
Kzo9I	GATC	2 cut(s)	219, 241
LpnPI	CCDG	8 cut(s)	44, 92, 183, 191, 214, 237, 344, 360
Lsp1109I	GCAGC	4 cut(s)	29, 113, 327, 330
LweI	GCATC	1 cut(s)	226
MaeI	CTAG	1 cut(s)	116
MaeIII	GTNAC	1 cut(s)	254
MalI	GATC	2 cut(s)	221, 243
MboI	GATC	2 cut(s)	219, 241
MfeI	CAATTG	1 cut(s)	69
MhlI	GDGCHC	1 cut(s)	68
MlsI	TGGCCA	1 cut(s)	90
MluCI	AATT	3 cut(s)	69, 82, 343
MluNI	TGGCCA	1 cut(s)	90
MnlI	CCTC	5 cut(s)	13, 67, 131, 277, 301
Mox20I	TGGCCA	1 cut(s)	90
MroXI	GAANNNNTTC	1 cut(s)	347
MscI	TGGCCA	1 cut(s)	90
MslI	CAYNNNNRTG	1 cut(s)	234
Msp20I	TGGCCA	1 cut(s)	90
MunI	CAATTG	1 cut(s)	69
MwoI	GCNNNNNNNGC	4 cut(s)	48, 183, 312, 327
NdeI	CATATG	1 cut(s)	47
NdeII	GATC	2 cut(s)	219, 241
NlaIII	CATG	1 cut(s)	233
NmuCI	GTSAC	1 cut(s)	254
NsbI	TGCGCA	1 cut(s)	105
PagI	TCATGA	1 cut(s)	229
PaqCI	CACCTGC	1 cut(s)	49
PdmI	GAANNNNTTC	1 cut(s)	347
PfeI	GAWTC	1 cut(s)	29
PkrI	GCNGC	4 cut(s)	44, 128, 317, 320
PspPI	GGNCC	1 cut(s)	76
RseI	CAYNNNNRTG	1 cut(s)	234
SatI	GCNGC	4 cut(s)	43, 127, 316, 319
Sau3AI	GATC	2 cut(s)	219, 241
Sau96I	GGNCC	1 cut(s)	76
SduI	GDGCHC	1 cut(s)	68
SetI	ASST	5 cut(s)	63, 78, 276, 323, 332
SfaNI	GCATC	1 cut(s)	226
SinI	GGWCC	1 cut(s)	76
SmiMI	CAYNNNNRTG	1 cut(s)	234
Sse9I	AATT	3 cut(s)	69, 82, 343
SsiI	CCGC	1 cut(s)	167
SspMI	CTAG	1 cut(s)	116
TasI	AATT	3 cut(s)	69, 82, 343
TfiI	GAWTC	1 cut(s)	29
TscAI	CASTG	1 cut(s)	256
TseFI	GTSAC	1 cut(s)	254
TseI	GCWGC	4 cut(s)	42, 126, 315, 318
Tsp45I	GTSAC	1 cut(s)	254
TspDTI	ATGAA	1 cut(s)	356
TspRI	CASTG	1 cut(s)	256
VneI	GTGCAC	1 cut(s)	64
VpaK11BI	GGWCC	1 cut(s)	76
XapI	RAATTY	1 cut(s)	343
XcmI	CCANNNNNNNNNTGG	1 cut(s)	202
XmnI	GAANNNNTTC	1 cut(s)	347
XspI	CTAG	1 cut(s)	116

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