Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0001022

Physical Location & Seq

Genomic Coordinates Reverse (-)

16102922 .. 16103260

Gene Structure 339 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG182800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 339 bp

ATGAACACAGGAGAAAAACACCATGAATTTAACCATTCCATGATTGGCACCAGTTACGCTTTATTTGCACAATCCAAGAGTTCACTATTGCAACCGTTAGATACCCAAAGTAAACACAACGCCAATTCCACGATGGGCTTCAAGAAGCTCAGTAAAATCCAGGCGATCACTTTGCCTATGATTTTGACTCCTCCGCACAAAGATCTGGTTGCTCAGGCCCATAATGGTTCCGGGAAGACGACCTGTTTCGTGCTTGGTATGCTCAGCCGTGTTGATCCCGATGTGAAAGCTCCTCGGGCTCTCTGCATCTGTCCCACCAGAGTTGGCTATTCAGGTTGA

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

112

Amino Acids

12.15

Weight (kDa)

9.51

Isoelectric Point (pI)

27.07

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
DEAD	PF00270	52 - 107	3.1e-11	DEAD/DEAH box helicase

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: 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)	47
AciI	CCGC	1 cut(s)	194
AclWI	GGATC	1 cut(s)	269
AcsI	RAATTY	1 cut(s)	26
AgsI	TTSAA	1 cut(s)	142
AjnI	CCWGG	1 cut(s)	159
AluBI	AGCT	2 cut(s)	148, 290
AluI	AGCT	2 cut(s)	148, 290
AlwI	GGATC	1 cut(s)	269
Ama87I	CYCGRG	1 cut(s)	294
AoxI	GGCC	1 cut(s)	216
ApoI	RAATTY	1 cut(s)	26
AspS9I	GGNCC	1 cut(s)	217
AsuC2I	CCSGG	1 cut(s)	232
AvaI	CYCGRG	1 cut(s)	294
BanI	GGYRCC	1 cut(s)	47
BanII	GRGCYC	1 cut(s)	301
BbsI	GAAGAC	1 cut(s)	242
BccI	CCATC	1 cut(s)	127
BceAI	ACGGC	1 cut(s)	252
BcgI	CGANNNNNNTGC	2 cut(s)	154, 188
BciT130I	CCWGG	1 cut(s)	161
BcnI	CCSGG	1 cut(s)	232
BglII	AGATCT	1 cut(s)	202
BlpI	GCTNAGC	1 cut(s)	263
Bme1390I	CCNGG	2 cut(s)	161, 232
BmeT110I	CYCGRG	1 cut(s)	294
BmgT120I	GGNCC	1 cut(s)	217
BmiI	GGNNCC	2 cut(s)	49, 229
BmrFI	CCNGG	2 cut(s)	161, 232
BmsI	GCATC	1 cut(s)	315
BpiI	GAAGAC	1 cut(s)	242
Bpu10I	CCTNAGC	1 cut(s)	213
Bpu1102I	GCTNAGC	1 cut(s)	263
BpuMI	CCSGG	1 cut(s)	232
BsaJI	CCNNGG	1 cut(s)	293
Bse1I	ACTGG	1 cut(s)	51
BseBI	CCWGG	1 cut(s)	161
BseDI	CCNNGG	1 cut(s)	293
BseMII	CTCAG	3 cut(s)	163, 227, 277
BseNI	ACTGG	1 cut(s)	51
BseRI	GAGGAG	2 cut(s)	180, 282
BshFI	GGCC	1 cut(s)	218
BshNI	GGYRCC	1 cut(s)	47
BsiHKCI	CYCGRG	1 cut(s)	294
BsiSI	CCGG	1 cut(s)	231
BslFI	GGGAC	1 cut(s)	297
BsmFI	GGGAC	1 cut(s)	297
BsnI	GGCC	1 cut(s)	218
BsoBI	CYCGRG	1 cut(s)	294
Bsp1286I	GDGCHC	1 cut(s)	301
Bsp143I	GATC	3 cut(s)	165, 202, 274
Bsp1720I	GCTNAGC	1 cut(s)	263
BspACI	CCGC	1 cut(s)	194
BspANI	GGCC	1 cut(s)	218
BspCNI	CTCAG	3 cut(s)	162, 226, 276
BspLI	GGNNCC	2 cut(s)	49, 229
BspPI	GGATC	1 cut(s)	269
BspT107I	GGYRCC	1 cut(s)	47
BsrI	ACTGG	1 cut(s)	51
BssECI	CCNNGG	1 cut(s)	293
BssMI	GATC	3 cut(s)	165, 202, 274
Bst2UI	CCWGG	1 cut(s)	161
Bst4CI	ACNGT	1 cut(s)	96
BstDEI	CTNAG	3 cut(s)	149, 213, 263
BstKTI	GATC	3 cut(s)	168, 205, 277
BstMBI	GATC	3 cut(s)	165, 202, 274
BstMWI	GCNNNNNNNGC	3 cut(s)	65, 259, 296
BstNI	CCWGG	1 cut(s)	161
BstSCI	CCNGG	2 cut(s)	159, 230
BstV2I	GAAGAC	1 cut(s)	242
BstX2I	RGATCY	1 cut(s)	202
BstYI	RGATCY	1 cut(s)	202
BsuRI	GGCC	1 cut(s)	218
Cfr13I	GGNCC	1 cut(s)	217
CspCI	CAANNNNNGTGG	2 cut(s)	304, 339
CviAII	CATG	2 cut(s)	23, 40
CviJI	RGCY	7 cut(s)	138, 148, 218, 267, 290, 299, 327
CviKI_1	RGCY	7 cut(s)	138, 148, 218, 267, 290, 299, 327
DdeI	CTNAG	3 cut(s)	149, 213, 263
DpnI	GATC	3 cut(s)	167, 204, 276
DpnII	GATC	3 cut(s)	165, 202, 274
Eco24I	GRGCYC	1 cut(s)	301
Eco88I	CYCGRG	1 cut(s)	294
EcoRII	CCWGG	1 cut(s)	159
EcoT38I	GRGCYC	1 cut(s)	301
FaeI	CATG	2 cut(s)	26, 43
FaiI	YATR	5 cut(s)	24, 41, 179, 222, 260
FaqI	GGGAC	1 cut(s)	297
FatI	CATG	2 cut(s)	22, 39
FriOI	GRGCYC	1 cut(s)	301
HaeIII	GGCC	1 cut(s)	218
HapII	CCGG	1 cut(s)	231
Hin1II	CATG	2 cut(s)	26, 43
HinfI	GANTC	1 cut(s)	187
HpaII	CCGG	1 cut(s)	231
Hpy166II	GTNNAC	2 cut(s)	83, 113
Hpy188III	TCNNGA	2 cut(s)	142, 278
Hpy8I	GTNNAC	2 cut(s)	83, 113
HpyCH4III	ACNGT	1 cut(s)	96
HpyCH4V	TGCA	3 cut(s)	68, 91, 306
HpyF10VI	GCNNNNNNNGC	3 cut(s)	65, 259, 296
HpyF3I	CTNAG	3 cut(s)	149, 213, 263
Hsp92II	CATG	2 cut(s)	26, 43
Kzo9I	GATC	3 cut(s)	165, 202, 274
LmnI	GCTCC	1 cut(s)	295
LpnPI	CCDG	9 cut(s)	64, 146, 173, 191, 200, 244, 256, 318, 331
LweI	GCATC	1 cut(s)	315
MaeIII	GTNAC	1 cut(s)	53
MalI	GATC	3 cut(s)	167, 204, 276
MboI	GATC	3 cut(s)	165, 202, 274
MboII	GAAGA	1 cut(s)	247
MflI	RGATCY	1 cut(s)	202
MhlI	GDGCHC	1 cut(s)	301
MluCI	AATT	2 cut(s)	26, 124
MlyI	GAGTC	1 cut(s)	181
MnlI	CCTC	2 cut(s)	201, 303
MseI	TTAA	1 cut(s)	30
MspI	CCGG	1 cut(s)	231
MspR9I	CCNGG	2 cut(s)	161, 232
MvaI	CCWGG	1 cut(s)	161
MwoI	GCNNNNNNNGC	3 cut(s)	65, 259, 296
NciI	CCSGG	1 cut(s)	232
NdeII	GATC	3 cut(s)	165, 202, 274
NlaIII	CATG	2 cut(s)	26, 43
NlaIV	GGNNCC	2 cut(s)	49, 229
PfoI	TCCNGGA	1 cut(s)	230
PleI	GAGTC	1 cut(s)	181
PpsI	GAGTC	1 cut(s)	181
Psp6I	CCWGG	1 cut(s)	159
PspGI	CCWGG	1 cut(s)	159
PspN4I	GGNNCC	2 cut(s)	49, 229
PspPI	GGNCC	1 cut(s)	217
PsuI	RGATCY	1 cut(s)	202
SaqAI	TTAA	1 cut(s)	30
Sau3AI	GATC	3 cut(s)	165, 202, 274
Sau96I	GGNCC	1 cut(s)	217
SchI	GAGTC	1 cut(s)	181
ScrFI	CCNGG	2 cut(s)	161, 232
SduI	GDGCHC	1 cut(s)	301
SetI	ASST	4 cut(s)	150, 245, 292, 337
SfaNI	GCATC	1 cut(s)	315
Sse9I	AATT	2 cut(s)	26, 124
SsiI	CCGC	1 cut(s)	194
StyD4I	CCNGG	2 cut(s)	159, 230
TaaI	ACNGT	1 cut(s)	96
TasI	AATT	2 cut(s)	26, 124
Tru1I	TTAA	1 cut(s)	30
Tru9I	TTAA	1 cut(s)	30
TspDTI	ATGAA	2 cut(s)	17, 39
XapI	RAATTY	1 cut(s)	26
XcmI	CCANNNNNNNNNTGG	2 cut(s)	41, 130

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