Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0003249

Physical Location & Seq

Genomic Coordinates Reverse (-)

1575095 .. 1577276

Gene Structure 2182 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00001130.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 474 bp

ATGACCAAGATCATTAAGGTGATGTTGCCTCCACATGTACGCGTCGCAAGAGATGCTCAAGATCTTATCATCGAGTGTTGTGTTGAAGATCTTGCTGGCTTGTCCTTCCAGACAACGCCTATGAATCTATCAAAGAAAGTGATGGTCTTCTTCTCTTCTTGCAACTCAGTAAAATTCCACTCTGACCTTCTTAGATACGTCAATGTGGATTGCTTTGATATCCATGGAAAGCAAAAGCAGCAGAAGAGGACAGGTACTTTTTTTGACTACTGTAAAGCAGAGAAAACAATCTTACTTTGTACTGATGTTGGTGCTCGTGGGCTGGGTATCCCTGCCGTGGACTGGATTATGCAGTGTGATCCTCCAGATGAACCCAAGGAATATATCCACAAGGCTGGTCGAACAGCTCGTGGGGAAGGTGGAAAAGGAAAAGCACTACTTTTCCTCATTCCCGAAGAGTTGCAGGCTATTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0006139 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0009987 GO:0010501 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:0140098 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD DUF4217 Helicase_C

Protein Analysis

157

Amino Acids

17.59

Weight (kDa)

8.15

Isoelectric Point (pI)

36.2

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Helicase_C	PF00271	44 - 138	6e-20	Helicase conserved C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Orthologous Genes (Group: OG0003249)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G18600
fragaria_vesca	FvH4_5g12870
malus_domestica	MD05G1177700.v1.1 MD06G1209500.v1.1 MD14G1220200.v1.1 MD15G1015500.v1.1
prunus_persica	Prupe.5G214700_v2.0.a1 Prupe.6G096100_v2.0.a1 Prupe.6G096400_v2.0.a1 Prupe.6G096400_v2.0.a1 Prupe.6G097300_v2.0.a1
pyrus_communis	pycom05g16360 pycom05g16400 pycom05g16410 pycom06g18710 pycom14g18230 pycom15g01320
rosa_chinensis	RchiOBHm_Chr5g0083351 RchiOBHm_Chr5g0083361 RchiOBHm_Chr7g0184361
rosa_laevigata	RLG00000004982 RLG00000037030
rosa_multiflora	Rmu_sc0001444.1_g000013 Rmu_sc0001557.1_g000022 Rmu_sc0002245.1_g000045
rosa_roxburghii	Rroxscaffold_1G00001130 Rroxscaffold_3G00269690
rosa_samantha	Rh5AG533800 Rh5BG561600 Rh5CG583900 Rh5CG584000 Rh7AG080700 Rh7BG066500 Rh7CG066800 Rh7DG066500
rosa_wichuraiana	Rw5G049900 Rw7G005460

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	42
AclWI	GGATC	1 cut(s)	353
AcsI	RAATTY	1 cut(s)	173
AfaI	GTAC	3 cut(s)	39, 256, 301
AfiI	CCNNNNNNNGG	2 cut(s)	337, 342
AflIII	ACRYGT	2 cut(s)	34, 40
AgsI	TTSAA	1 cut(s)	86
AluBI	AGCT	1 cut(s)	407
AluI	AGCT	1 cut(s)	407
Alw21I	GWGCWC	1 cut(s)	316
AlwI	GGATC	1 cut(s)	353
ApeKI	GCWGC	1 cut(s)	238
ApoI	RAATTY	1 cut(s)	173
AsuHPI	GGTGA	1 cut(s)	31
BauI	CACGAG	2 cut(s)	315, 408
BbsI	GAAGAC	1 cut(s)	139
Bbv12I	GWGCWC	1 cut(s)	316
BbvI	GCAGC	1 cut(s)	250
BccI	CCATC	1 cut(s)	136
BceAI	ACGGC	1 cut(s)	320
BciVI	GTATCC	1 cut(s)	338
BfuI	GTATCC	1 cut(s)	338
BglII	AGATCT	2 cut(s)	61, 88
BisI	GCNGC	1 cut(s)	239
BlsI	GCNGC	1 cut(s)	240
BmsI	GCATC	1 cut(s)	43
BpiI	GAAGAC	1 cut(s)	139
BpmI	CTGGAG	1 cut(s)	348
BpuEI	CTTGAG	1 cut(s)	42
BsaJI	CCNNGG	3 cut(s)	223, 336, 375
Bsc4I	CCNNNNNNNGG	2 cut(s)	337, 342
Bse1I	ACTGG	1 cut(s)	347
BseDI	CCNNGG	3 cut(s)	223, 336, 375
BseLI	CCNNNNNNNGG	2 cut(s)	337, 342
BseMII	CTCAG	1 cut(s)	180
BseNI	ACTGG	1 cut(s)	347
BseXI	GCAGC	1 cut(s)	250
BseYI	CCCAGC	1 cut(s)	322
Bsh1236I	CGCG	1 cut(s)	42
BsiHKAI	GWGCWC	1 cut(s)	316
BslI	CCNNNNNNNGG	2 cut(s)	337, 342
Bsp1286I	GDGCHC	1 cut(s)	316
Bsp143I	GATC	4 cut(s)	9, 61, 88, 358
Bsp19I	CCATGG	1 cut(s)	223
BspCNI	CTCAG	1 cut(s)	179
BspFNI	CGCG	1 cut(s)	42
BspPI	GGATC	1 cut(s)	353
BsrI	ACTGG	1 cut(s)	347
BssECI	CCNNGG	3 cut(s)	223, 336, 375
BssMI	GATC	4 cut(s)	9, 61, 88, 358
BssSI	CACGAG	2 cut(s)	315, 408
BssT1I	CCWWGG	2 cut(s)	223, 375
Bst2BI	CACGAG	2 cut(s)	315, 408
Bst4CI	ACNGT	1 cut(s)	272
Bst6I	CTCTTC	3 cut(s)	160, 239, 450
BstAPI	GCANNNNNTGC	1 cut(s)	53
BstC8I	GCNNGC	2 cut(s)	97, 465
BstDEI	CTNAG	2 cut(s)	166, 191
BstDSI	CCRYGG	2 cut(s)	223, 336
BstFNI	CGCG	1 cut(s)	42
BstKTI	GATC	4 cut(s)	12, 64, 91, 361
BstMBI	GATC	4 cut(s)	9, 61, 88, 358
BstMWI	GCNNNNNNNGC	2 cut(s)	53, 238
BstNSI	RCATGY	1 cut(s)	38
BstUI	CGCG	1 cut(s)	42
BstV1I	GCAGC	1 cut(s)	250
BstV2I	GAAGAC	1 cut(s)	139
BstX2I	RGATCY	2 cut(s)	61, 88
BstXI	CCANNNNNNTGG	1 cut(s)	395
BstYI	RGATCY	2 cut(s)	61, 88
BsuI	GTATCC	1 cut(s)	338
BtgI	CCRYGG	2 cut(s)	223, 336
BtsI	GCAGTG	1 cut(s)	359
BtsIMutI	CAGTG	1 cut(s)	359
Cac8I	GCNNGC	2 cut(s)	97, 465
CseI	GACGC	1 cut(s)	31
Csp6I	GTAC	3 cut(s)	38, 255, 300
CviAII	CATG	2 cut(s)	35, 224
CviJI	RGCY	5 cut(s)	99, 322, 395, 407, 467
CviKI_1	RGCY	5 cut(s)	99, 322, 395, 407, 467
CviQI	GTAC	3 cut(s)	38, 255, 300
DdeI	CTNAG	2 cut(s)	166, 191
DpnI	GATC	4 cut(s)	11, 63, 90, 360
DpnII	GATC	4 cut(s)	9, 61, 88, 358
Eam1104I	CTCTTC	3 cut(s)	160, 239, 450
EarI	CTCTTC	3 cut(s)	160, 239, 450
Eco130I	CCWWGG	2 cut(s)	223, 375
Eco32I	GATATC	1 cut(s)	220
EcoRV	GATATC	1 cut(s)	220
EcoT14I	CCWWGG	2 cut(s)	223, 375
ErhI	CCWWGG	2 cut(s)	223, 375
FaeI	CATG	2 cut(s)	38, 227
FaiI	YATR	5 cut(s)	36, 122, 225, 350, 384
FalI	AAGNNNNNCTT	2 cut(s)	423, 455
FatI	CATG	2 cut(s)	34, 223
Fnu4HI	GCNGC	1 cut(s)	239
Fsp4HI	GCNGC	1 cut(s)	239
GluI	GCNGC	1 cut(s)	239
GsaI	CCCAGC	1 cut(s)	326
GsuI	CTGGAG	1 cut(s)	348
HgaI	GACGC	1 cut(s)	31
Hin1II	CATG	2 cut(s)	38, 227
HinfI	GANTC	1 cut(s)	124
HphI	GGTGA	1 cut(s)	31
Hpy166II	GTNNAC	1 cut(s)	340
Hpy188I	TCNGA	1 cut(s)	184
Hpy188III	TCNNGA	4 cut(s)	59, 109, 365, 452
Hpy8I	GTNNAC	1 cut(s)	340
Hpy99I	CGWCG	1 cut(s)	47
HpyAV	CCTTC	3 cut(s)	115, 197, 410
HpyCH4III	ACNGT	1 cut(s)	272
HpyCH4IV	ACGT	1 cut(s)	198
HpyCH4V	TGCA	3 cut(s)	162, 352, 463
HpyF10VI	GCNNNNNNNGC	2 cut(s)	53, 238
HpyF3I	CTNAG	2 cut(s)	166, 191
HpySE526I	ACGT	1 cut(s)	198
Hsp92II	CATG	2 cut(s)	38, 227
Kzo9I	GATC	4 cut(s)	9, 61, 88, 358
LpnPI	CCDG	9 cut(s)	81, 122, 237, 308, 328, 345, 378, 381, 449
Lsp1109I	GCAGC	1 cut(s)	250
LweI	GCATC	1 cut(s)	43
MaeII	ACGT	1 cut(s)	198
MalI	GATC	4 cut(s)	11, 63, 90, 360
MboI	GATC	4 cut(s)	9, 61, 88, 358
MboII	GAAGA	6 cut(s)	98, 139, 142, 147, 256, 467
MflI	RGATCY	2 cut(s)	61, 88
MhlI	GDGCHC	1 cut(s)	316
MluCI	AATT	1 cut(s)	173
MluI	ACGCGT	1 cut(s)	40
MnlI	CCTC	4 cut(s)	39, 240, 372, 455
MseI	TTAA	1 cut(s)	15
MslI	CAYNNNNRTG	1 cut(s)	17
MvnI	CGCG	1 cut(s)	42
MwoI	GCNNNNNNNGC	2 cut(s)	53, 238
NcoI	CCATGG	1 cut(s)	223
NdeII	GATC	4 cut(s)	9, 61, 88, 358
NlaIII	CATG	2 cut(s)	38, 227
NspI	RCATGY	1 cut(s)	38
PciI	ACATGT	1 cut(s)	34
PcsI	WCGNNNNNNNCGW	1 cut(s)	406
PfeI	GAWTC	1 cut(s)	124
PkrI	GCNGC	1 cut(s)	240
PscI	ACATGT	1 cut(s)	34
PspFI	CCCAGC	1 cut(s)	322
PsuI	RGATCY	2 cut(s)	61, 88
RsaI	GTAC	3 cut(s)	39, 256, 301
RsaNI	GTAC	3 cut(s)	38, 255, 300
RseI	CAYNNNNRTG	1 cut(s)	17
SaqAI	TTAA	1 cut(s)	15
SatI	GCNGC	1 cut(s)	239
Sau3AI	GATC	4 cut(s)	9, 61, 88, 358
SduI	GDGCHC	1 cut(s)	316
SetI	ASST	6 cut(s)	21, 189, 201, 256, 409, 421
SfaNI	GCATC	1 cut(s)	43
SmiMI	CAYNNNNRTG	1 cut(s)	17
SmlI	CTYRAG	1 cut(s)	57
SmoI	CTYRAG	1 cut(s)	57
Sse9I	AATT	1 cut(s)	173
StyI	CCWWGG	2 cut(s)	223, 375
TaaI	ACNGT	1 cut(s)	272
TaiI	ACGT	1 cut(s)	201
TaqI	TCGA	2 cut(s)	72, 400
TasI	AATT	1 cut(s)	173
TatI	WGTACW	1 cut(s)	299
TfiI	GAWTC	1 cut(s)	124
Tru1I	TTAA	1 cut(s)	15
Tru9I	TTAA	1 cut(s)	15
TscAI	CASTG	1 cut(s)	359
TseI	GCWGC	1 cut(s)	238
TspDTI	ATGAA	2 cut(s)	137, 384
TspRI	CASTG	1 cut(s)	359
XapI	RAATTY	1 cut(s)	173
XceI	RCATGY	1 cut(s)	38

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