Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0001022

Physical Location & Seq

Genomic Coordinates Forward (+)

16239076 .. 16239375

Gene Structure 300 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG183100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 300 bp

ATGATTGGCACCAGTTACGCTTTATTTGCACAATCCAAGAGTTCACTATTGCAAGCATTAGATGCCCAAAGTAAACACAACGCCAATTCCACGATGGGCTTCAAGAAGCTCAGTAAACTCCAGGCGATCACTTTGCCTATGATTTTGACTCCTCCGCACAAAGATCTGGTTGCTCAGGCCCATAATGGTTCCGGGAAGACGACCTGTTTCGTGCTTGGTATGCTCAGCCATGTTGATCCCGATGTGAAAGCTCCTCAGGCTCTCTGCATCTGTCCCACCAGAGTTGGCTATTCAGGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001101 GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005635 GO:0005730 GO:0005737 GO:0005886 GO:0006139 GO:0006403 GO:0006405 GO:0006406 GO:0006611 GO:0006725 GO:0006807 GO:0006810 GO:0006886 GO:0006913 GO:0006950 GO:0008026 GO:0008104 GO:0008150 GO:0008152 GO:0008186 GO:0009266 GO:0009408 GO:0009409 GO:0009628 GO:0009719 GO:0009725 GO:0009737 GO:0009987 GO:0010033 GO:0010467 GO:0010501 GO:0012505 GO:0015031 GO:0015833 GO:0015931 GO:0016020 GO:0016070 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0016973 GO:0017111 GO:0031503 GO:0031967 GO:0031974 GO:0031975 GO:0031981 GO:0033036 GO:0033993 GO:0034613 GO:0034641 GO:0042221 GO:0042623 GO:0042886 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:0045184 GO:0046483 GO:0046907 GO:0050657 GO:0050658 GO:0050896 GO:0051028 GO:0051168 GO:0051169 GO:0051179 GO:0051234 GO:0051236 GO:0051641 GO:0051649 GO:0070013 GO:0070035 GO:0070727 GO:0071166 GO:0071426 GO:0071427 GO:0071702 GO:0071704 GO:0071705 GO:0071944 GO:0090304 GO:0097305 GO:0140098 GO:1901360 GO:1901700

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD Helicase_C

Protein Analysis

99

Amino Acids

10.5

Weight (kDa)

9.37

Isoelectric Point (pI)

36.18

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	39 - 94	3.9e-11	DEAD/DEAH box helicase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0001022)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G53110
fragaria_vesca	FvH4_6g17230 FvH4_6g17230 FvH4_6g17230 FvH4_6g17280 FvH4_6g17280
malus_domestica	MD12G1102600.v1.1 MD14G1096800.v1.1
prunus_persica	Prupe.3G009100_v2.0.a1 Prupe.7G122600_v2.0.a1
pyrus_communis	pycom03g08760 pycom12g10060 pycom14g09450
rosa_chinensis	RchiOBHm_Chr3g0471311 RchiOBHm_Chr3g0471321 RchiOBHm_Chr3g0471361 RchiOBHm_Chr3g0471391
rosa_laevigata	RLG00000024181 RLG00000024187 RLG00000024188
rosa_multiflora	Rmu_sc0006582.1_g000015 Rmu_sc0006582.1_g000018 Rmu_sc0009082.1_g000003 Rmu_sc0010513.1_g000003 Rmu_sc0015755.1_g000002 Rmu_sc0030425.1_g000001
rosa_roxburghii	Rroxscaffold_6G00409980 Rroxscaffold_6G00410000 Rroxscaffold_6G00410060 Rroxscaffold_6G00410080
rosa_rugosa	Rorug03G0117100 Rorug03G0117100 Rorug03G0117100 Rorug03G0117400 Rorug03G0117500 Rorug03G0117500
rosa_samantha	Rh3AG166500 Rh3AG166600 Rh3AG166700 Rh3AG167100 Rh3BG191900 Rh3BG192000 Rh3BG192100 Rh3BG192400 Rh3BG192500 Rh3BG192800 Rh3CG182200 Rh3CG182300 Rh3CG182400 Rh3CG182700 Rh3CG182800 Rh3CG183200 Rh3DG182700 Rh3DG183100 Rh3DG183200 Rh3DG183700 Rh3DG183800
rosa_wichuraiana	Rw3G015670 Rw3G015680 Rw3G015730 Rw3G015760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	8
AciI	CCGC	1 cut(s)	155
AclWI	GGATC	1 cut(s)	230
AgsI	TTSAA	1 cut(s)	103
AjnI	CCWGG	1 cut(s)	120
AluBI	AGCT	2 cut(s)	109, 251
AluI	AGCT	2 cut(s)	109, 251
AlwI	GGATC	1 cut(s)	230
AoxI	GGCC	1 cut(s)	177
AspS9I	GGNCC	1 cut(s)	178
AsuC2I	CCSGG	1 cut(s)	193
AxyI	CCTNAGG	1 cut(s)	255
BanI	GGYRCC	1 cut(s)	8
BbsI	GAAGAC	1 cut(s)	203
BccI	CCATC	1 cut(s)	88
BcgI	CGANNNNNNTGC	2 cut(s)	115, 149
BciT130I	CCWGG	1 cut(s)	122
BcnI	CCSGG	1 cut(s)	193
BglII	AGATCT	1 cut(s)	163
BlpI	GCTNAGC	1 cut(s)	224
Bme1390I	CCNGG	2 cut(s)	122, 193
BmgT120I	GGNCC	1 cut(s)	178
BmiI	GGNNCC	2 cut(s)	10, 190
BmrFI	CCNGG	2 cut(s)	122, 193
BmsI	GCATC	2 cut(s)	52, 276
BpiI	GAAGAC	1 cut(s)	203
BpmI	CTGGAG	1 cut(s)	104
Bpu10I	CCTNAGC	1 cut(s)	174
Bpu1102I	GCTNAGC	1 cut(s)	224
BpuMI	CCSGG	1 cut(s)	193
Bse1I	ACTGG	1 cut(s)	12
Bse21I	CCTNAGG	1 cut(s)	255
BseBI	CCWGG	1 cut(s)	122
BseMII	CTCAG	4 cut(s)	124, 188, 238, 269
BseNI	ACTGG	1 cut(s)	12
BseRI	GAGGAG	2 cut(s)	141, 243
BshFI	GGCC	1 cut(s)	179
BshNI	GGYRCC	1 cut(s)	8
BsiSI	CCGG	1 cut(s)	192
BslFI	GGGAC	1 cut(s)	258
BsmFI	GGGAC	1 cut(s)	258
BsnI	GGCC	1 cut(s)	179
Bsp143I	GATC	3 cut(s)	126, 163, 235
Bsp1720I	GCTNAGC	1 cut(s)	224
BspACI	CCGC	1 cut(s)	155
BspANI	GGCC	1 cut(s)	179
BspCNI	CTCAG	4 cut(s)	123, 187, 237, 268
BspLI	GGNNCC	2 cut(s)	10, 190
BspPI	GGATC	1 cut(s)	230
BspT107I	GGYRCC	1 cut(s)	8
BsrI	ACTGG	1 cut(s)	12
BssMI	GATC	3 cut(s)	126, 163, 235
Bst2UI	CCWGG	1 cut(s)	122
BstAPI	GCANNNNNTGC	1 cut(s)	62
BstC8I	GCNNGC	1 cut(s)	54
BstDEI	CTNAG	4 cut(s)	110, 174, 224, 255
BstKTI	GATC	3 cut(s)	129, 166, 238
BstMBI	GATC	3 cut(s)	126, 163, 235
BstMWI	GCNNNNNNNGC	4 cut(s)	26, 62, 220, 257
BstNI	CCWGG	1 cut(s)	122
BstSCI	CCNGG	2 cut(s)	120, 191
BstV2I	GAAGAC	1 cut(s)	203
BstX2I	RGATCY	1 cut(s)	163
BstYI	RGATCY	1 cut(s)	163
Bsu36I	CCTNAGG	1 cut(s)	255
BsuRI	GGCC	1 cut(s)	179
Cac8I	GCNNGC	1 cut(s)	54
Cfr13I	GGNCC	1 cut(s)	178
CspCI	CAANNNNNGTGG	2 cut(s)	265, 300
CviAII	CATG	1 cut(s)	230
CviJI	RGCY	7 cut(s)	99, 109, 179, 228, 251, 260, 288
CviKI_1	RGCY	7 cut(s)	99, 109, 179, 228, 251, 260, 288
DdeI	CTNAG	4 cut(s)	110, 174, 224, 255
DpnI	GATC	3 cut(s)	128, 165, 237
DpnII	GATC	3 cut(s)	126, 163, 235
Eco81I	CCTNAGG	1 cut(s)	255
EcoRII	CCWGG	1 cut(s)	120
FaeI	CATG	1 cut(s)	233
FaiI	YATR	4 cut(s)	140, 183, 221, 231
FaqI	GGGAC	1 cut(s)	258
FatI	CATG	1 cut(s)	229
GsuI	CTGGAG	1 cut(s)	104
HaeIII	GGCC	1 cut(s)	179
HapII	CCGG	1 cut(s)	192
Hin1II	CATG	1 cut(s)	233
HinfI	GANTC	1 cut(s)	148
HpaII	CCGG	1 cut(s)	192
Hpy166II	GTNNAC	3 cut(s)	44, 74, 116
Hpy188III	TCNNGA	2 cut(s)	103, 239
Hpy8I	GTNNAC	3 cut(s)	44, 74, 116
HpyCH4V	TGCA	3 cut(s)	29, 52, 267
HpyF10VI	GCNNNNNNNGC	4 cut(s)	26, 62, 220, 257
HpyF3I	CTNAG	4 cut(s)	110, 174, 224, 255
Hsp92II	CATG	1 cut(s)	233
Kzo9I	GATC	3 cut(s)	126, 163, 235
LmnI	GCTCC	1 cut(s)	256
LweI	GCATC	2 cut(s)	52, 276
MaeIII	GTNAC	1 cut(s)	14
MalI	GATC	3 cut(s)	128, 165, 237
MboI	GATC	3 cut(s)	126, 163, 235
MboII	GAAGA	1 cut(s)	208
MflI	RGATCY	1 cut(s)	163
MluCI	AATT	1 cut(s)	85
MlyI	GAGTC	1 cut(s)	142
MnlI	CCTC	2 cut(s)	162, 264
MspI	CCGG	1 cut(s)	192
MspR9I	CCNGG	2 cut(s)	122, 193
MvaI	CCWGG	1 cut(s)	122
MwoI	GCNNNNNNNGC	4 cut(s)	26, 62, 220, 257
NciI	CCSGG	1 cut(s)	193
NdeII	GATC	3 cut(s)	126, 163, 235
NlaIII	CATG	1 cut(s)	233
NlaIV	GGNNCC	2 cut(s)	10, 190
PfoI	TCCNGGA	1 cut(s)	191
PleI	GAGTC	1 cut(s)	142
PpsI	GAGTC	1 cut(s)	142
Psp6I	CCWGG	1 cut(s)	120
PspGI	CCWGG	1 cut(s)	120
PspN4I	GGNNCC	2 cut(s)	10, 190
PspPI	GGNCC	1 cut(s)	178
PsuI	RGATCY	1 cut(s)	163
Sau3AI	GATC	3 cut(s)	126, 163, 235
Sau96I	GGNCC	1 cut(s)	178
SchI	GAGTC	1 cut(s)	142
ScrFI	CCNGG	2 cut(s)	122, 193
SetI	ASST	4 cut(s)	111, 206, 253, 298
SfaNI	GCATC	2 cut(s)	52, 276
Sse9I	AATT	1 cut(s)	85
SsiI	CCGC	1 cut(s)	155
StyD4I	CCNGG	2 cut(s)	120, 191
TasI	AATT	1 cut(s)	85
XcmI	CCANNNNNNNNNTGG	1 cut(s)	91

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