Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0016441

Physical Location & Seq

Genomic Coordinates Reverse (-)

10326957 .. 10338862

Gene Structure 11906 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG049200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 669 bp

ATGGCTGCCACTGCAACTGCCTCTGCTGGTCCTCGATATGCTCCAGAAGAACCATGGAAAGGATTGAGTTCAAGAAGTGCACCAGTTTCTTCTAACAATGGTCCAAGTGGGTCAGTTAATGCACATGGAGTATCTGTTATTAGAGGAAATGGACCATCAAACACTGGAAGTGGTTTGTCTGCTGAGGCTTATTGTCGGCAGTATGAAATAACTGTTATTGGTGATAATGTGCTCCCACCGTTTACTTCTTTTGAAGCTACGAGCTTCCCGTCTGAAATTCTTAGAGAGGAGCATCATGTACAAACTTGTCATGGTTATGTGTCTGTTGCCGTGTTGGGAGATCAGGACAAACCAGCTCTTGTCACTTATCCTGATGTAGCTTTAAATCGCGTATCGGAAACTCCCTCTCAAAATGACAAGGAGGACATACTGTCGCGGCTTCTATTGGAGAGTGAGAAGAATCTGGAGGAGATGAATGATAAATATTTAAGCGAAATAATTCTGAAGTTCATGATTTCTGGGAAAGATACCAGTCCAAATTCACTCTTATGGTTCTTCTACATGCTCAGCAAAGAACCCTCTAACATAATTTATTATTGTTCGAACAAGCTTCTAGTGCTTGCCCTCTTTTGTGCCCCTTTCAGATTTGATTGTGCTTTGGAATATTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003724 GO:0003824 GO:0004004 GO:0004386 GO:0004672 GO:0004674 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005730 GO:0005737 GO:0005829 GO:0006139 GO:0006464 GO:0006468 GO:0006725 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0006970 GO:0006972 GO:0008026 GO:0008150 GO:0008152 GO:0008186 GO:0009628 GO:0009651 GO:0009987 GO:0010501 GO:0016070 GO:0016301 GO:0016310 GO:0016462 GO:0016740 GO:0016772 GO:0016773 GO:0016787 GO:0016817 GO:0016818 GO:0016887 GO:0017111 GO:0019538 GO:0031974 GO:0031981 GO:0034641 GO:0036211 GO:0042623 GO:0043170 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043412 GO:0044237 GO:0044238 GO:0044260 GO:0044267 GO:0044422 GO:0044424 GO:0044428 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0046777 GO:0050896 GO:0070013 GO:0070035 GO:0071704 GO:0090304 GO:0140096 GO:0140098 GO:1901360 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko03040 ko05202 ko05205 map03040 map05202 map05205

Pfam Domains

Protein Families

DEAD Helicase_C WW

Protein Analysis

222

Amino Acids

24.34

Weight (kDa)

4.93

Isoelectric Point (pI)

52.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Ndr	PF03096	97 - 132	1.3e-07	Ndr family
p450	PF00067	130 - 194	1.1e-06	Cytochrome P450

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Orthologous Genes (Group: OG0016441)

Species	Orthologous Gene IDs
rosa_chinensis	RchiOBHm_Chr2g0118241 RchiOBHm_Chr2g0123031
rosa_laevigata	RLG00000008416 RLG00000023056
rosa_roxburghii	Rroxscaffold_1G00021090
rosa_rugosa	Rorug01G0216100
rosa_samantha	Rh1CG004200 Rh4AG049200 Rh4AG161400 Rh5DG126500 Rh6AG370200 Rh6DG213100 Rh7DG392200 Rh7DG401400
rosa_wichuraiana	Rw5G011890

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	2 cut(s)	390, 436
AciI	CCGC	1 cut(s)	436
AcsI	RAATTY	2 cut(s)	276, 538
AcuI	CTGAAG	1 cut(s)	524
AfaI	GTAC	1 cut(s)	300
AfiI	CCNNNNNNNGG	1 cut(s)	59
AgsI	TTSAA	2 cut(s)	72, 254
AhdI	GACNNNNNGTC	1 cut(s)	430
AluBI	AGCT	5 cut(s)	257, 264, 356, 380, 610
AluI	AGCT	5 cut(s)	257, 264, 356, 380, 610
Alw21I	GWGCWC	2 cut(s)	82, 234
Alw44I	GTGCAC	1 cut(s)	78
ApaLI	GTGCAC	1 cut(s)	78
ApeKI	GCWGC	1 cut(s)	5
ApoI	RAATTY	2 cut(s)	276, 538
Asp700I	GAANNNNTTC	1 cut(s)	498
AspS9I	GGNCC	3 cut(s)	29, 101, 152
AsuHPI	GGTGA	1 cut(s)	233
AsuII	TTCGAA	1 cut(s)	602
AvaII	GGWCC	3 cut(s)	29, 101, 152
BaeGI	GKGCMC	2 cut(s)	82, 637
Bbv12I	GWGCWC	2 cut(s)	82, 234
BbvCI	CCTCAGC	1 cut(s)	183
BccI	CCATC	1 cut(s)	163
BceAI	ACGGC	1 cut(s)	314
BfaI	CTAG	1 cut(s)	614
BisI	GCNGC	2 cut(s)	6, 437
BlpI	GCTNAGC	1 cut(s)	566
BlsI	GCNGC	2 cut(s)	7, 438
Bme18I	GGWCC	3 cut(s)	29, 101, 152
BmeRI	GACNNNNNGTC	1 cut(s)	430
BmgT120I	GGNCC	3 cut(s)	29, 101, 152
BmsI	GCATC	1 cut(s)	301
BpmI	CTGGAG	2 cut(s)	27, 485
Bpu10I	CCTNAGC	1 cut(s)	183
Bpu1102I	GCTNAGC	1 cut(s)	566
Bpu14I	TTCGAA	1 cut(s)	602
BsaJI	CCNNGG	1 cut(s)	53
BsaXI	ACNNNNNCTCC	2 cut(s)	120, 150
Bsc4I	CCNNNNNNNGG	1 cut(s)	59
Bse1I	ACTGG	3 cut(s)	83, 169, 531
BseDI	CCNNGG	1 cut(s)	53
BseLI	CCNNNNNNNGG	1 cut(s)	59
BseMII	CTCAG	2 cut(s)	174, 580
BseNI	ACTGG	3 cut(s)	83, 169, 531
BseRI	GAGGAG	2 cut(s)	302, 482
BseSI	GKGCMC	2 cut(s)	82, 637
Bsh1236I	CGCG	2 cut(s)	390, 436
BsiHKAI	GWGCWC	2 cut(s)	82, 234
BslI	CCNNNNNNNGG	1 cut(s)	59
Bsp119I	TTCGAA	1 cut(s)	602
Bsp1286I	GDGCHC	3 cut(s)	82, 234, 637
Bsp1407I	TGTACA	1 cut(s)	298
Bsp143I	GATC	1 cut(s)	340
Bsp1720I	GCTNAGC	1 cut(s)	566
Bsp19I	CCATGG	1 cut(s)	53
BspACI	CCGC	1 cut(s)	436
BspCNI	CTCAG	2 cut(s)	175, 579
BspFNI	CGCG	2 cut(s)	390, 436
BspHI	TCATGA	1 cut(s)	510
BspT104I	TTCGAA	1 cut(s)	602
BsrGI	TGTACA	1 cut(s)	298
BsrI	ACTGG	3 cut(s)	83, 169, 531
BssECI	CCNNGG	1 cut(s)	53
BssMI	GATC	1 cut(s)	340
BssT1I	CCWWGG	1 cut(s)	53
Bst4CI	ACNGT	3 cut(s)	214, 240, 432
BstAUI	TGTACA	1 cut(s)	298
BstBI	TTCGAA	1 cut(s)	602
BstC8I	GCNNGC	1 cut(s)	621
BstDEI	CTNAG	3 cut(s)	183, 281, 566
BstDSI	CCRYGG	1 cut(s)	53
BstFNI	CGCG	2 cut(s)	390, 436
BstKTI	GATC	1 cut(s)	343
BstMBI	GATC	1 cut(s)	340
BstMWI	GCNNNNNNNGC	2 cut(s)	11, 616
BstNSI	RCATGY	1 cut(s)	565
BstSLI	GKGCMC	2 cut(s)	82, 637
BstUI	CGCG	2 cut(s)	390, 436
BtgI	CCRYGG	1 cut(s)	53
BtsI	GCAGTG	1 cut(s)	9
BtsIMutI	CAGTG	2 cut(s)	9, 162
Cac8I	GCNNGC	1 cut(s)	621
CciI	TCATGA	1 cut(s)	510
Cfr13I	GGNCC	3 cut(s)	29, 101, 152
Csp6I	GTAC	1 cut(s)	299
CviAII	CATG	6 cut(s)	54, 125, 296, 311, 511, 562
CviJI	RGCY	8 cut(s)	5, 188, 257, 264, 356, 380, 439, 610
CviKI_1	RGCY	8 cut(s)	5, 188, 257, 264, 356, 380, 439, 610
CviQI	GTAC	1 cut(s)	299
DdeI	CTNAG	3 cut(s)	183, 281, 566
DpnI	GATC	1 cut(s)	342
DpnII	GATC	1 cut(s)	340
DraI	TTTAAA	1 cut(s)	384
DriI	GACNNNNNGTC	1 cut(s)	430
Eam1105I	GACNNNNNGTC	1 cut(s)	430
Eco130I	CCWWGG	1 cut(s)	53
Eco47I	GGWCC	3 cut(s)	29, 101, 152
Eco57I	CTGAAG	1 cut(s)	524
EcoT14I	CCWWGG	1 cut(s)	53
ErhI	CCWWGG	1 cut(s)	53
FaeI	CATG	6 cut(s)	57, 128, 299, 314, 514, 565
FatI	CATG	6 cut(s)	53, 124, 295, 310, 510, 561
Fnu4HI	GCNGC	2 cut(s)	6, 437
Fsp4HI	GCNGC	2 cut(s)	6, 437
FspBI	CTAG	1 cut(s)	614
GluI	GCNGC	2 cut(s)	6, 437
GsuI	CTGGAG	2 cut(s)	27, 485
Hin1II	CATG	6 cut(s)	57, 128, 299, 314, 514, 565
HindIII	AAGCTT	1 cut(s)	608
HinfI	GANTC	1 cut(s)	460
HphI	GGTGA	1 cut(s)	233
Hpy166II	GTNNAC	2 cut(s)	80, 243
Hpy188I	TCNGA	4 cut(s)	274, 397, 504, 644
Hpy188III	TCNNGA	6 cut(s)	44, 72, 344, 371, 464, 511
Hpy8I	GTNNAC	2 cut(s)	80, 243
HpyCH4III	ACNGT	3 cut(s)	214, 240, 432
HpyCH4V	TGCA	3 cut(s)	14, 80, 122
HpyF10VI	GCNNNNNNNGC	2 cut(s)	11, 616
HpyF3I	CTNAG	3 cut(s)	183, 281, 566
Hsp92II	CATG	6 cut(s)	57, 128, 299, 314, 514, 565
Kzo9I	GATC	1 cut(s)	340
LmnI	GCTCC	3 cut(s)	46, 237, 289
LweI	GCATC	1 cut(s)	301
MaeI	CTAG	1 cut(s)	614
MaeIII	GTNAC	1 cut(s)	361
MalI	GATC	1 cut(s)	342
MboI	GATC	1 cut(s)	340
MboII	GAAGA	4 cut(s)	59, 81, 469, 547
MhlI	GDGCHC	3 cut(s)	82, 234, 637
MluCI	AATT	4 cut(s)	276, 498, 538, 588
MroXI	GAANNNNTTC	1 cut(s)	498
MseI	TTAA	3 cut(s)	117, 383, 488
MslI	CAYNNNNRTG	2 cut(s)	315, 547
MvnI	CGCG	2 cut(s)	390, 436
MwoI	GCNNNNNNNGC	2 cut(s)	11, 616
NcoI	CCATGG	1 cut(s)	53
NdeII	GATC	1 cut(s)	340
NlaIII	CATG	6 cut(s)	57, 128, 299, 314, 514, 565
NmuCI	GTSAC	1 cut(s)	361
NspI	RCATGY	1 cut(s)	565
NspV	TTCGAA	1 cut(s)	602
PagI	TCATGA	1 cut(s)	510
PcsI	WCGNNNNNNNCGW	1 cut(s)	266
PdmI	GAANNNNTTC	1 cut(s)	498
PfeI	GAWTC	1 cut(s)	460
PkrI	GCNGC	2 cut(s)	7, 438
PspPI	GGNCC	3 cut(s)	29, 101, 152
RsaI	GTAC	1 cut(s)	300
RsaNI	GTAC	1 cut(s)	299
RseI	CAYNNNNRTG	2 cut(s)	315, 547
SaqAI	TTAA	3 cut(s)	117, 383, 488
SatI	GCNGC	2 cut(s)	6, 437
Sau3AI	GATC	1 cut(s)	340
Sau96I	GGNCC	3 cut(s)	29, 101, 152
SduI	GDGCHC	3 cut(s)	82, 234, 637
SetI	ASST	5 cut(s)	259, 266, 358, 382, 612
SfaNI	GCATC	1 cut(s)	301
SfuI	TTCGAA	1 cut(s)	602
SinI	GGWCC	3 cut(s)	29, 101, 152
SmiMI	CAYNNNNRTG	2 cut(s)	315, 547
Sse9I	AATT	4 cut(s)	276, 498, 538, 588
SsiI	CCGC	1 cut(s)	436
SspI	AATATT	2 cut(s)	485, 665
SspMI	CTAG	1 cut(s)	614
StyI	CCWWGG	1 cut(s)	53
TaaI	ACNGT	3 cut(s)	214, 240, 432
TaqI	TCGA	2 cut(s)	34, 602
TasI	AATT	4 cut(s)	276, 498, 538, 588
TatI	WGTACW	1 cut(s)	298
TauI	GCSGC	1 cut(s)	439
TfiI	GAWTC	1 cut(s)	460
Tru1I	TTAA	3 cut(s)	117, 383, 488
Tru9I	TTAA	3 cut(s)	117, 383, 488
TscAI	CASTG	2 cut(s)	16, 169
TseFI	GTSAC	1 cut(s)	361
TseI	GCWGC	1 cut(s)	5
Tsp45I	GTSAC	1 cut(s)	361
TspDTI	ATGAA	3 cut(s)	219, 488, 499
TspRI	CASTG	2 cut(s)	16, 169
VneI	GTGCAC	1 cut(s)	78
VpaK11BI	GGWCC	3 cut(s)	29, 101, 152
XapI	RAATTY	2 cut(s)	276, 538
XceI	RCATGY	1 cut(s)	565
XcmI	CCANNNNNNNNNTGG	1 cut(s)	51
XmnI	GAANNNNTTC	1 cut(s)	498
XspI	CTAG	1 cut(s)	614

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