Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0000599

Physical Location & Seq

Genomic Coordinates Reverse (-)

83878820 .. 83879520

Gene Structure 701 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG616700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 327 bp

ATGAAGGCTATGAAAATACCGGTATCCAAATTTCAGTTTCCTACTCCTCCAAATGGTGATACTATTGATGAAGCAGAGGATCGTTTGAAGCTCCTCAAAGCACTTGATAGCAATGGAGAGGTGACACCTTTAGGGAAGGCCATGGCTTATTACCCCATAAATCCTCGCCAATCTAAGATGCTCCTTACGGTCATTGAAATCCTGAATATGAAGCAAAGTTATTCCCGAGCTAATTTAGTGCTAGCATATGCAGTTGCAGCAGCTGCAGCTTTGAGTGTGTCTAATCCTTTTGACAGTCCATTTGAAGATAGTCACATAAAAAACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003676 GO:0003723 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006139 GO:0006396 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0009987 GO:0010467 GO:0016070 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0031974 GO:0031981 GO:0034641 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0070035 GO:0071704 GO:0090304 GO:0097159 GO:0140098 GO:1901360 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD HA2 Helicase_C OB_NTP_bind

Protein Analysis

108

Amino Acids

11.87

Weight (kDa)

7.95

Isoelectric Point (pI)

53.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_HA2	PF04408	25 - 53	1.4e-08	Helicase associated domain (HA2), winged-helix

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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Orthologous Genes (Group: OG0000599)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G33390 AT1G33390
fragaria_vesca	FvH4_3g40090 FvH4_3g40090 FvH4_3g40090 FvH4_6g48600
malus_domestica	MD04G1241500.v1.1 MD05G1017800.v1.1
prunus_persica	Prupe.1G193500_v2.0.a1 Prupe.1G193500_v2.0.a1 Prupe.1G193500_v2.0.a1 Prupe.1G193500_v2.0.a1 Prupe.1G193500_v2.0.a1 Prupe.1G193500_v2.0.a1 Prupe.1G193500_v2.0.a1 Prupe.1G193500_v2.0.a1 Prupe.1G193500_v2.0.a1 Prupe.1G193500_v2.0.a1 Prupe.1G193500_v2.0.a1 Prupe.1G193500_v2.0.a1 Prupe.1G193500_v2.0.a1 Prupe.1G193500_v2.0.a1 Prupe.1G193500_v2.0.a1
pyrus_communis	pycom04g21310 pycom05g01000 pycom05g01050 pycom11g20470
rosa_chinensis	RchiOBHm_Chr2g0168421 RchiOBHm_Chr2g0168431 RchiOBHm_Chr2g0168441 RchiOBHm_Chr2g0168451 RchiOBHm_Chr2g0168461 RchiOBHm_Chr4g0407811 RchiOBHm_Chr7g0220161 RchiOBHm_Chr7g0220171 RchiOBHm_Chr7g0220481
rosa_laevigata	RLG00000002253 RLG00000008696 RLG00000021781
rosa_multiflora	Rmu_co8232135.1_g000001 Rmu_sc0000966.1_g000007 Rmu_sc0003573.1_g000032 Rmu_sc0006361.1_g000012 Rmu_sc0006361.1_g000013 Rmu_sc0012607.1_g000001 Rmu_sc0016657.1_g000009
rosa_roxburghii	Rroxscaffold_2G00083000 Rroxscaffold_2G00083010 Rroxscaffold_3G00239750 Rroxscaffold_5G00352370
rosa_rugosa	Rorug02G0533800 Rorug02G0533800 Rorug04G0081400 Rorug07G0189900 Rorug07G0190000
rosa_samantha	Rh2AG603500 Rh2AG603700 Rh2BG616600 Rh2BG616700 Rh2BG616800 Rh2CG584500 Rh2CG584600 Rh2CG584700 Rh2DG627100 Rh2DG627200 Rh4AG146500 Rh4BG144000 Rh4CG153000 Rh4DG140500 Rh7AG332900 Rh7BG324300 Rh7BG324400 Rh7BG324500 Rh7CG350400 Rh7DG329000
rosa_wichuraiana	Rw0G022710 Rw2G050050 Rw4G011990 Rw7G028060 Rw7G028070

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AclWI	GGATC	1 cut(s)	87
AcsI	RAATTY	1 cut(s)	29
AfiI	CCNNNNNNNGG	1 cut(s)	53
AgeI	ACCGGT	1 cut(s)	19
AgsI	TTSAA	3 cut(s)	88, 197, 305
AluBI	AGCT	4 cut(s)	91, 230, 263, 269
AluI	AGCT	4 cut(s)	91, 230, 263, 269
AlwI	GGATC	1 cut(s)	87
AlwNI	CAGNNNCTG	1 cut(s)	263
Ama87I	CYCGRG	1 cut(s)	225
AoxI	GGCC	1 cut(s)	138
ApeKI	GCWGC	4 cut(s)	257, 260, 263, 266
ApoI	RAATTY	1 cut(s)	29
ArsI	GACNNNNNNTTYG	2 cut(s)	284, 316
AsiGI	ACCGGT	1 cut(s)	19
AsuHPI	GGTGA	2 cut(s)	68, 133
AsuNHI	GCTAGC	1 cut(s)	241
AvaI	CYCGRG	1 cut(s)	225
BbvI	GCAGC	4 cut(s)	250, 269, 272, 278
BciVI	GTATCC	1 cut(s)	34
BfaI	CTAG	1 cut(s)	242
BfmI	CTRYAG	1 cut(s)	264
BfuI	GTATCC	1 cut(s)	34
BisI	GCNGC	4 cut(s)	258, 261, 264, 267
BlsI	GCNGC	4 cut(s)	259, 262, 265, 268
BmeT110I	CYCGRG	1 cut(s)	225
BmsI	GCATC	1 cut(s)	168
BmtI	GCTAGC	1 cut(s)	245
BsaJI	CCNNGG	1 cut(s)	141
BsaWI	WCCGGW	1 cut(s)	19
Bsc4I	CCNNNNNNNGG	1 cut(s)	53
Bse118I	RCCGGY	1 cut(s)	19
Bse3DI	GCAATG	1 cut(s)	118
BseDI	CCNNGG	1 cut(s)	141
BseLI	CCNNNNNNNGG	1 cut(s)	53
BseMI	GCAATG	1 cut(s)	118
BseRI	GAGGAG	2 cut(s)	36, 83
BseXI	GCAGC	4 cut(s)	250, 269, 272, 278
BshFI	GGCC	1 cut(s)	140
BshTI	ACCGGT	1 cut(s)	19
BsiHKCI	CYCGRG	1 cut(s)	225
BsiSI	CCGG	1 cut(s)	20
BslI	CCNNNNNNNGG	1 cut(s)	53
BsnI	GGCC	1 cut(s)	140
BsoBI	CYCGRG	1 cut(s)	225
Bsp143I	GATC	1 cut(s)	79
Bsp19I	CCATGG	1 cut(s)	141
BspANI	GGCC	1 cut(s)	140
BspMAI	CTGCAG	1 cut(s)	268
BspOI	GCTAGC	1 cut(s)	245
BspPI	GGATC	1 cut(s)	87
BsrDI	GCAATG	1 cut(s)	118
BsrFI	RCCGGY	1 cut(s)	19
BssAI	RCCGGY	1 cut(s)	19
BssECI	CCNNGG	1 cut(s)	141
BssMI	GATC	1 cut(s)	79
BssT1I	CCWWGG	1 cut(s)	141
Bst4CI	ACNGT	2 cut(s)	190, 296
BstAPI	GCANNNNNTGC	1 cut(s)	263
BstC8I	GCNNGC	1 cut(s)	243
BstDEI	CTNAG	1 cut(s)	174
BstDSI	CCRYGG	1 cut(s)	141
BstKTI	GATC	1 cut(s)	82
BstMBI	GATC	1 cut(s)	79
BstMWI	GCNNNNNNNGC	3 cut(s)	257, 263, 266
BstSFI	CTRYAG	1 cut(s)	264
BstV1I	GCAGC	4 cut(s)	250, 269, 272, 278
BsuI	GTATCC	1 cut(s)	34
BsuRI	GGCC	1 cut(s)	140
BtgI	CCRYGG	1 cut(s)	141
Cac8I	GCNNGC	1 cut(s)	243
CaiI	CAGNNNCTG	1 cut(s)	263
Cfr10I	RCCGGY	1 cut(s)	19
CspAI	ACCGGT	1 cut(s)	19
CviAII	CATG	1 cut(s)	142
CviJI	RGCY	7 cut(s)	8, 91, 140, 146, 230, 263, 269
CviKI_1	RGCY	7 cut(s)	8, 91, 140, 146, 230, 263, 269
DdeI	CTNAG	1 cut(s)	174
DpnI	GATC	1 cut(s)	81
DpnII	GATC	1 cut(s)	79
Eco130I	CCWWGG	1 cut(s)	141
Eco88I	CYCGRG	1 cut(s)	225
EcoT14I	CCWWGG	1 cut(s)	141
ErhI	CCWWGG	1 cut(s)	141
FaeI	CATG	1 cut(s)	145
FaiI	YATR	7 cut(s)	11, 143, 158, 209, 247, 249, 317
FatI	CATG	1 cut(s)	141
FauNDI	CATATG	1 cut(s)	247
Fnu4HI	GCNGC	4 cut(s)	258, 261, 264, 267
Fsp4HI	GCNGC	4 cut(s)	258, 261, 264, 267
FspBI	CTAG	1 cut(s)	242
GluI	GCNGC	4 cut(s)	258, 261, 264, 267
HaeIII	GGCC	1 cut(s)	140
HapII	CCGG	1 cut(s)	20
Hin1II	CATG	1 cut(s)	145
HpaII	CCGG	1 cut(s)	20
HphI	GGTGA	2 cut(s)	68, 133
Hpy188III	TCNNGA	2 cut(s)	202, 225
HpyAV	CCTTC	1 cut(s)	130
HpyCH4III	ACNGT	2 cut(s)	190, 296
HpyCH4V	TGCA	3 cut(s)	251, 257, 266
HpyF10VI	GCNNNNNNNGC	3 cut(s)	257, 263, 266
HpyF3I	CTNAG	1 cut(s)	174
Hsp92II	CATG	1 cut(s)	145
Kzo9I	GATC	1 cut(s)	79
LmnI	GCTCC	2 cut(s)	96, 186
LpnPI	CCDG	2 cut(s)	33, 215
Lsp1109I	GCAGC	4 cut(s)	250, 269, 272, 278
LweI	GCATC	1 cut(s)	168
MaeI	CTAG	1 cut(s)	242
MaeIII	GTNAC	2 cut(s)	121, 311
MalI	GATC	1 cut(s)	81
MboI	GATC	1 cut(s)	79
MboII	GAAGA	1 cut(s)	317
MluCI	AATT	2 cut(s)	29, 232
MnlI	CCTC	5 cut(s)	57, 70, 104, 112, 174
MspA1I	CMGCKG	1 cut(s)	263
MspI	CCGG	1 cut(s)	20
MwoI	GCNNNNNNNGC	3 cut(s)	257, 263, 266
NcoI	CCATGG	1 cut(s)	141
NdeI	CATATG	1 cut(s)	247
NdeII	GATC	1 cut(s)	79
NheI	GCTAGC	1 cut(s)	241
NlaIII	CATG	1 cut(s)	145
NmuCI	GTSAC	2 cut(s)	121, 311
PinAI	ACCGGT	1 cut(s)	19
PkrI	GCNGC	4 cut(s)	259, 262, 265, 268
PstI	CTGCAG	1 cut(s)	268
PstNI	CAGNNNCTG	1 cut(s)	263
PvuII	CAGCTG	1 cut(s)	263
SatI	GCNGC	4 cut(s)	258, 261, 264, 267
Sau3AI	GATC	1 cut(s)	79
SetI	ASST	6 cut(s)	93, 123, 130, 232, 265, 271
SfaNI	GCATC	1 cut(s)	168
SfcI	CTRYAG	1 cut(s)	264
SgeI	CNNG	8 cut(s)	32, 116, 154, 177, 214, 237, 239, 254
Sse9I	AATT	2 cut(s)	29, 232
SspMI	CTAG	1 cut(s)	242
StyI	CCWWGG	1 cut(s)	141
TaaI	ACNGT	2 cut(s)	190, 296
TasI	AATT	2 cut(s)	29, 232
TseFI	GTSAC	2 cut(s)	121, 311
TseI	GCWGC	4 cut(s)	257, 260, 263, 266
Tsp45I	GTSAC	2 cut(s)	121, 311
TspDTI	ATGAA	4 cut(s)	17, 26, 84, 224
XapI	RAATTY	1 cut(s)	29
XspI	CTAG	1 cut(s)	242

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