Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1C

Orthogroup ID

OG0012679

Physical Location & Seq

Genomic Coordinates Forward (+)

16214527 .. 16225018

Gene Structure 10492 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1CG077400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 498 bp

ATGAGCCAGTCAAAAAGACTTGGTGCCTTAAATATGTTTAAAGCTGGAGAGTGTAATGTACTTATCTGCACTGATGTAGCAAGTAGAGGATTGGATATTCCGTCGGTGGATATGGTTATTAATTATGATATTCCCTCAAATTCTAAGCCTCCCAGGCCCCAGCCTCTCAACCTCGTCTCAGCCTCATCGAAGAACCGAGACCGAAACAACAGCTCAACCTACTCGATCCAAGTCTCCTCCATCGAAGACTCGAAGGCTCCTCTACTCCATCGAAGATCGGAAGCTGTCGCTCTTCGCTCACTCCTCTCTGCCCTCCTCGAAGATTCGAAGGCTCTCGATGGGAAAACTGGGAATCATGTAACCTCAACCTCTTCAACCTCTTGTCCTCCTCCAAAAGCTAAGGGAAAGAATGGTATTGGAACTAATGATGAAGTTGTTCAACTTAGTGAAGATGACTCCGAGGATGAAATGGTGTCTGATGATTCAGAAAACAATTGA

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:0006364 GO:0006396 GO:0006725 GO:0006807 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0009987 GO:0010467 GO:0010501 GO:0016070 GO:0016072 GO:0016462 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0022613 GO:0031974 GO:0031981 GO:0034470 GO:0034641 GO:0034660 GO:0042254 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0044085 GO:0044237 GO:0044238 GO:0044422 GO:0044424 GO:0044428 GO:0044446 GO:0044464 GO:0046483 GO:0070013 GO:0070035 GO:0071704 GO:0071840 GO:0090304 GO:0140098 GO:1901360

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

DEAD Helicase_C

Protein Analysis

165

Amino Acids

17.68

Weight (kDa)

5.03

Isoelectric Point (pI)

59.93

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Helicase_C	PF00271	1 - 48	5.4e-15	Helicase conserved C-terminal domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0012679)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr1g0360411 RchiOBHm_Chr3g0479201 RchiOBHm_Chr5g0016291 RchiOBHm_Chr5g0071091
rosa_laevigata	RLG00000004355 RLG00000012312 RLG00000019508 RLG00000019971 RLG00000036427
rosa_multiflora	Rmu_sc0011390.1_g000003
rosa_roxburghii	Rroxscaffold_1G00009370 Rroxscaffold_2G00107450
rosa_rugosa	Rorug01G0201800
rosa_samantha	Rh1BG230500 Rh1CG077400 Rh2DG192900 Rh4BG427800 Rh7AG180300 Rh7CG180400

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	23
AclWI	GGATC	1 cut(s)	220
AcsI	RAATTY	1 cut(s)	139
AfaI	GTAC	1 cut(s)	60
AgsI	TTSAA	2 cut(s)	375, 440
AjnI	CCWGG	1 cut(s)	152
AluBI	AGCT	4 cut(s)	44, 213, 284, 398
AluI	AGCT	4 cut(s)	44, 213, 284, 398
Alw26I	GTCTC	3 cut(s)	181, 192, 238
AlwI	GGATC	1 cut(s)	220
AoxI	GGCC	1 cut(s)	155
ApoI	RAATTY	1 cut(s)	139
AseI	ATTAAT	1 cut(s)	120
Asp700I	GAANNNNTTC	1 cut(s)	435
AspS9I	GGNCC	1 cut(s)	156
AsuII	TTCGAA	1 cut(s)	326
BanI	GGYRCC	1 cut(s)	23
BbsI	GAAGAC	1 cut(s)	252
BccI	CCATC	3 cut(s)	248, 276, 332
BciT130I	CCWGG	1 cut(s)	154
BcoDI	GTCTC	3 cut(s)	181, 192, 238
BglI	GCCNNNNNGGC	1 cut(s)	154
Bme1390I	CCNGG	1 cut(s)	154
BmgT120I	GGNCC	1 cut(s)	156
BmiI	GGNNCC	3 cut(s)	25, 158, 258
BmrFI	CCNGG	1 cut(s)	154
BmrI	ACTGGG	1 cut(s)	357
BmuI	ACTGGG	1 cut(s)	357
BpiI	GAAGAC	1 cut(s)	252
BpmI	CTGGAG	1 cut(s)	66
Bpu10I	CCTNAGC	1 cut(s)	399
Bpu14I	TTCGAA	1 cut(s)	326
BsaI	GGTCTC	1 cut(s)	192
BsaJI	CCNNGG	2 cut(s)	152, 459
Bse1I	ACTGG	2 cut(s)	7, 352
BseBI	CCWGG	1 cut(s)	154
BseDI	CCNNGG	2 cut(s)	152, 459
BseGI	GGATG	1 cut(s)	469
BseMII	CTCAG	1 cut(s)	192
BseNI	ACTGG	2 cut(s)	7, 352
BseRI	GAGGAG	5 cut(s)	226, 249, 293, 305, 378
BseYI	CCCAGC	1 cut(s)	159
BsgI	GTGCAG	1 cut(s)	52
BshFI	GGCC	1 cut(s)	157
BshNI	GGYRCC	1 cut(s)	23
BsmAI	GTCTC	3 cut(s)	181, 192, 238
BsmBI	CGTCTC	1 cut(s)	181
BsnI	GGCC	1 cut(s)	157
Bso31I	GGTCTC	1 cut(s)	192
Bsp119I	TTCGAA	1 cut(s)	326
Bsp143I	GATC	2 cut(s)	225, 275
BspANI	GGCC	1 cut(s)	157
BspCNI	CTCAG	1 cut(s)	191
BspLI	GGNNCC	3 cut(s)	25, 158, 258
BspPI	GGATC	1 cut(s)	220
BspQI	GCTCTTC	1 cut(s)	297
BspT104I	TTCGAA	1 cut(s)	326
BspT107I	GGYRCC	1 cut(s)	23
BspTNI	GGTCTC	1 cut(s)	192
BsrI	ACTGG	2 cut(s)	7, 352
BssECI	CCNNGG	2 cut(s)	152, 459
BssMI	GATC	2 cut(s)	225, 275
Bst2UI	CCWGG	1 cut(s)	154
Bst6I	CTCTTC	2 cut(s)	297, 376
BstBI	TTCGAA	1 cut(s)	326
BstDEI	CTNAG	4 cut(s)	144, 178, 399, 443
BstF5I	GGATG	1 cut(s)	469
BstKTI	GATC	2 cut(s)	228, 278
BstMAI	GTCTC	3 cut(s)	181, 192, 238
BstMBI	GATC	2 cut(s)	225, 275
BstMWI	GCNNNNNNNGC	1 cut(s)	154
BstNI	CCWGG	1 cut(s)	154
BstSCI	CCNGG	1 cut(s)	152
BstV2I	GAAGAC	1 cut(s)	252
BsuRI	GGCC	1 cut(s)	157
BtsCI	GGATG	1 cut(s)	469
BtsIMutI	CAGTG	1 cut(s)	69
Cfr13I	GGNCC	1 cut(s)	156
Csp6I	GTAC	1 cut(s)	59
CviAII	CATG	1 cut(s)	356
CviQI	GTAC	1 cut(s)	59
DdeI	CTNAG	4 cut(s)	144, 178, 399, 443
DpnI	GATC	2 cut(s)	227, 277
DpnII	GATC	2 cut(s)	225, 275
DraI	TTTAAA	1 cut(s)	40
Eam1104I	CTCTTC	2 cut(s)	297, 376
EarI	CTCTTC	2 cut(s)	297, 376
Eco31I	GGTCTC	1 cut(s)	192
EcoO109I	RGGNCCY	1 cut(s)	156
EcoRII	CCWGG	1 cut(s)	152
Esp3I	CGTCTC	1 cut(s)	181
FaeI	CATG	1 cut(s)	359
FaiI	YATR	4 cut(s)	35, 113, 126, 357
FatI	CATG	1 cut(s)	355
FokI	GGATG	1 cut(s)	476
GsaI	CCCAGC	1 cut(s)	163
GsuI	CTGGAG	1 cut(s)	66
HaeIII	GGCC	1 cut(s)	157
Hin1II	CATG	1 cut(s)	359
HinfI	GANTC	5 cut(s)	248, 323, 352, 455, 482
Hpy188I	TCNGA	4 cut(s)	280, 460, 478, 487
Hpy188III	TCNNGA	1 cut(s)	335
Hpy99I	CGWCG	1 cut(s)	106
HpyAV	CCTTC	2 cut(s)	247, 322
HpyCH4V	TGCA	1 cut(s)	69
HpyF10VI	GCNNNNNNNGC	1 cut(s)	154
HpyF3I	CTNAG	4 cut(s)	144, 178, 399, 443
Hsp92II	CATG	1 cut(s)	359
Kzo9I	GATC	2 cut(s)	225, 275
LguI	GCTCTTC	1 cut(s)	297
LmnI	GCTCC	1 cut(s)	262
LpnPI	CCDG	6 cut(s)	20, 30, 139, 166, 173, 333
MaeIII	GTNAC	1 cut(s)	358
MalI	GATC	2 cut(s)	227, 277
MboI	GATC	2 cut(s)	225, 275
MboII	GAAGA	7 cut(s)	202, 257, 284, 285, 332, 363, 461
MfeI	CAATTG	1 cut(s)	493
MluCI	AATT	3 cut(s)	121, 139, 493
MlyI	GAGTC	2 cut(s)	242, 449
MroXI	GAANNNNTTC	1 cut(s)	435
MseI	TTAA	3 cut(s)	29, 39, 120
MspR9I	CCNGG	1 cut(s)	154
MunI	CAATTG	1 cut(s)	493
MvaI	CCWGG	1 cut(s)	154
MwoI	GCNNNNNNNGC	1 cut(s)	154
NdeII	GATC	2 cut(s)	225, 275
NlaIII	CATG	1 cut(s)	359
NlaIV	GGNNCC	3 cut(s)	25, 158, 258
NspV	TTCGAA	1 cut(s)	326
PciSI	GCTCTTC	1 cut(s)	297
PdmI	GAANNNNTTC	1 cut(s)	435
PfeI	GAWTC	3 cut(s)	323, 352, 482
PleI	GAGTC	2 cut(s)	242, 449
PpsI	GAGTC	2 cut(s)	242, 449
PshBI	ATTAAT	1 cut(s)	120
Psp6I	CCWGG	1 cut(s)	152
PspFI	CCCAGC	1 cut(s)	159
PspGI	CCWGG	1 cut(s)	152
PspN4I	GGNNCC	3 cut(s)	25, 158, 258
PspPI	GGNCC	1 cut(s)	156
RsaI	GTAC	1 cut(s)	60
RsaNI	GTAC	1 cut(s)	59
SapI	GCTCTTC	1 cut(s)	297
SaqAI	TTAA	3 cut(s)	29, 39, 120
Sau3AI	GATC	2 cut(s)	225, 275
Sau96I	GGNCC	1 cut(s)	156
SchI	GAGTC	2 cut(s)	242, 449
ScrFI	CCNGG	1 cut(s)	154
SetI	ASST	9 cut(s)	46, 174, 215, 221, 286, 365, 371, 380, 400
SfuI	TTCGAA	1 cut(s)	326
Sse9I	AATT	3 cut(s)	121, 139, 493
StyD4I	CCNGG	1 cut(s)	152
TaqI	TCGA	8 cut(s)	188, 224, 243, 251, 271, 318, 326, 336
TaqII	GACCGA	1 cut(s)	216
TasI	AATT	3 cut(s)	121, 139, 493
TatI	WGTACW	1 cut(s)	58
TfiI	GAWTC	3 cut(s)	323, 352, 482
Tru1I	TTAA	3 cut(s)	29, 39, 120
Tru9I	TTAA	3 cut(s)	29, 39, 120
TscAI	CASTG	1 cut(s)	76
TspDTI	ATGAA	2 cut(s)	444, 480
TspGWI	ACGGA	1 cut(s)	90
TspRI	CASTG	1 cut(s)	76
VspI	ATTAAT	1 cut(s)	120
XapI	RAATTY	1 cut(s)	139
XmnI	GAANNNNTTC	1 cut(s)	435

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