Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr7B

Orthogroup ID

OG0000599

Physical Location & Seq

Genomic Coordinates Reverse (-)

31995528 .. 31996116

Gene Structure 589 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh7BG324400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 243 bp

ATGACAGTTCCCCATCTGAAATATCCAAAGTCCCTCTTGAAGTTGTCTGCTTTTCCTTTTCTTACTCGTCCAAAGGATGATGCTCTTAATGGAGGACAGCGTTGCTTGGAGATCCTCGAAGCGCTTACTGAGGATGGAGAAGTGACACCTCTAGGGAAGGCCATGGCTTATTACCCCATAAGTCCTCGCCACTCTAAGATGCTCCTAACAGTCATCAAAATGTTGAATAAGGAGAAAAGTTAA

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

80

Amino Acids

8.99

Weight (kDa)

9.37

Isoelectric Point (pI)

47.77

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
WHD_HA2	PF04408	34 - 60	3.8e-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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Align Labels (Cladogram)

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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)	106
AfeI	AGCGCT	1 cut(s)	123
AgsI	TTSAA	2 cut(s)	40, 226
AlwI	GGATC	1 cut(s)	106
Aor51HI	AGCGCT	1 cut(s)	123
AoxI	GGCC	1 cut(s)	159
AspLEI	GCGC	1 cut(s)	124
BccI	CCATC	2 cut(s)	21, 128
BfaI	CTAG	1 cut(s)	152
BfoI	RGCGCY	1 cut(s)	125
BmsI	GCATC	2 cut(s)	70, 189
BsaJI	CCNNGG	1 cut(s)	162
BseDI	CCNNGG	1 cut(s)	162
BseGI	GGATG	2 cut(s)	82, 139
BseMII	CTCAG	1 cut(s)	120
BshFI	GGCC	1 cut(s)	161
BslFI	GGGAC	1 cut(s)	16
BsmFI	GGGAC	1 cut(s)	16
BsnI	GGCC	1 cut(s)	161
Bsp143I	GATC	1 cut(s)	111
Bsp19I	CCATGG	1 cut(s)	162
BspANI	GGCC	1 cut(s)	161
BspCNI	CTCAG	1 cut(s)	121
BspPI	GGATC	1 cut(s)	106
BssECI	CCNNGG	1 cut(s)	162
BssMI	GATC	1 cut(s)	111
BssT1I	CCWWGG	1 cut(s)	162
Bst4CI	ACNGT	2 cut(s)	7, 211
BstDEI	CTNAG	2 cut(s)	129, 195
BstDSI	CCRYGG	1 cut(s)	162
BstF5I	GGATG	2 cut(s)	82, 139
BstH2I	RGCGCY	1 cut(s)	125
BstHHI	GCGC	1 cut(s)	124
BstKTI	GATC	1 cut(s)	114
BstMBI	GATC	1 cut(s)	111
BstX2I	RGATCY	1 cut(s)	111
BstYI	RGATCY	1 cut(s)	111
BsuRI	GGCC	1 cut(s)	161
BtgI	CCRYGG	1 cut(s)	162
BtsCI	GGATG	2 cut(s)	82, 139
CfoI	GCGC	1 cut(s)	124
CviAII	CATG	1 cut(s)	163
CviJI	RGCY	2 cut(s)	161, 167
CviKI_1	RGCY	2 cut(s)	161, 167
DdeI	CTNAG	2 cut(s)	129, 195
DpnI	GATC	1 cut(s)	113
DpnII	GATC	1 cut(s)	111
Eco130I	CCWWGG	1 cut(s)	162
Eco47III	AGCGCT	1 cut(s)	123
EcoT14I	CCWWGG	1 cut(s)	162
ErhI	CCWWGG	1 cut(s)	162
FaeI	CATG	1 cut(s)	166
FaiI	YATR	2 cut(s)	164, 179
FalI	AAGNNNNNCTT	2 cut(s)	20, 52
FaqI	GGGAC	1 cut(s)	16
FatI	CATG	1 cut(s)	162
FokI	GGATG	2 cut(s)	89, 146
FspBI	CTAG	1 cut(s)	152
GlaI	GCGC	1 cut(s)	123
HaeII	RGCGCY	1 cut(s)	125
HaeIII	GGCC	1 cut(s)	161
HhaI	GCGC	1 cut(s)	124
Hin1II	CATG	1 cut(s)	166
Hin6I	GCGC	1 cut(s)	122
HinP1I	GCGC	1 cut(s)	122
Hpy188I	TCNGA	1 cut(s)	18
Hpy188III	TCNNGA	1 cut(s)	37
HpyAV	CCTTC	1 cut(s)	151
HpyCH4III	ACNGT	2 cut(s)	7, 211
HpyF3I	CTNAG	2 cut(s)	129, 195
Hsp92II	CATG	1 cut(s)	166
HspAI	GCGC	1 cut(s)	122
Kzo9I	GATC	1 cut(s)	111
LmnI	GCTCC	1 cut(s)	207
LweI	GCATC	2 cut(s)	70, 189
MaeI	CTAG	1 cut(s)	152
MaeIII	GTNAC	1 cut(s)	142
MalI	GATC	1 cut(s)	113
MboI	GATC	1 cut(s)	111
MflI	RGATCY	1 cut(s)	111
MnlI	CCTC	6 cut(s)	44, 86, 124, 125, 159, 195
MseI	TTAA	2 cut(s)	87, 241
MslI	CAYNNNNRTG	1 cut(s)	218
NcoI	CCATGG	1 cut(s)	162
NdeII	GATC	1 cut(s)	111
NlaIII	CATG	1 cut(s)	166
NmuCI	GTSAC	1 cut(s)	142
PsuI	RGATCY	1 cut(s)	111
RseI	CAYNNNNRTG	1 cut(s)	218
SaqAI	TTAA	2 cut(s)	87, 241
Sau3AI	GATC	1 cut(s)	111
SetI	ASST	1 cut(s)	151
SfaNI	GCATC	2 cut(s)	70, 189
SgeI	CNNG	7 cut(s)	49, 78, 118, 128, 164, 175, 198
SmiMI	CAYNNNNRTG	1 cut(s)	218
SspMI	CTAG	1 cut(s)	152
StyI	CCWWGG	1 cut(s)	162
TaaI	ACNGT	2 cut(s)	7, 211
TaqI	TCGA	1 cut(s)	117
Tru1I	TTAA	2 cut(s)	87, 241
Tru9I	TTAA	2 cut(s)	87, 241
TseFI	GTSAC	1 cut(s)	142
Tsp45I	GTSAC	1 cut(s)	142
XspI	CTAG	1 cut(s)	152

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