Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4A

Orthogroup ID

OG0007505

Physical Location & Seq

Genomic Coordinates Forward (+)

1509846 .. 1516890

Gene Structure 7045 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4AG009000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 792 bp

ATGTTTTGGGAGCTAATCAAAACCAAGATTCGATTTGGCTTGGGTTTACTCCAGGGAATTGGTCTTTTATTTCAACAAATCAAATGGGATATTTGCTTTTCTCGCACTAACACAAATAGCAGATTGTTCATTGCTGAAGAATTGGCTTTGTACAATGGGACTGACCAAAACATCAATCAGACTGCAGGTGCTATTGGAGGTGCTGCTTCTTCTATTGTACGAGTGCCAACAGAGTCCAACATGAGAATCTTGGTTACTGGAGGAGCTGGATTCATTGGTTCTCACCTGGTTGACAGATTAATGGAAAATGAAAAGAATGAGGTTATTGTTGTTGATAACTACTTCACTGGCTCCAAGGACAATCTTAAAAAATGGATTGGTCATCCCAGATTTGAGCTTATTCGTCATGATGTCACTGAAACATTGTTGGTTGAGGTTGATCGGATATACCATCTTGCATGCCCAGCTTCTCCAAATTTCTACAAATATAATCCTGTAAAGATGGCTGAGCACAGAATATCAAAATATGGCAAGAAGCAAAGTGAGTGGGACCAAATGGCTAGTTGGATAGTGAACAATGAATTGTACAGTGAGAATGTTGTATGGTTGATACAGGTTCTTTGCATTATAATCTCTGTGTTCGATCTGTGGCATTTGTCTTCCTCTTACCATAAGCTCTATCTACTGTGTTTTGATTCCAGGAGTAACAGATACAAGCTTGACAAGTGTAAAGAGGAATCCAAAGGACCTGGAACCTACAAGAAGAAAATTATGCGACCCCTGAATGTATAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003824 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005886 GO:0005975 GO:0005996 GO:0008150 GO:0008152 GO:0009987 GO:0016020 GO:0016043 GO:0016829 GO:0016830 GO:0016831 GO:0019321 GO:0022607 GO:0036094 GO:0042732 GO:0042802 GO:0042803 GO:0043167 GO:0043168 GO:0043933 GO:0044085 GO:0044238 GO:0044281 GO:0044424 GO:0044444 GO:0044464 GO:0046983 GO:0048037 GO:0048040 GO:0050662 GO:0051259 GO:0051262 GO:0051287 GO:0065003 GO:0070403 GO:0071704 GO:0071840 GO:0071944 GO:0097159 GO:1901265 GO:1901363

KEGG Pathways

Metabolic & Signaling

ko00520 ko01100 map00520 map01100

Pfam Domains

Protein Families

GDP_Man_Dehyd

Protein Analysis

263

Amino Acids

30.32

Weight (kDa)

8.96

Isoelectric Point (pI)

32.16

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Epimerase	PF01370	83 - 172	3.4e-10	NAD dependent epimerase/dehydratase family
GDP_Man_Dehyd	PF16363	84 - 161	3.5e-10	GDP-mannose 4,6 dehydratase
AMP_deaminase	PF19326	167 - 216	2.8e-14	AMP deaminase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

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Orthologous Genes (Group: OG0007505)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_4g35700
rosa_chinensis	RchiOBHm_Chr1g0355991 RchiOBHm_Chr3g0484201 RchiOBHm_Chr4g0386571 RchiOBHm_Chr5g0062611 RchiOBHm_Chr5g0078661
rosa_laevigata	RLG00000012406 RLG00000013851 RLG00000029253 RLG00000036777
rosa_multiflora	Rmu_sc0002320.1_g000011 Rmu_sc0011118.1_g000001
rosa_roxburghii	Rroxscaffold_1G00018160
rosa_rugosa	Rorug01G0411000 Rorug02G0260000 Rorug02G0422300 Rorug05G0349200 Rorug07G0311000
rosa_samantha	Rh3AG181800 Rh3AG233700 Rh4AG009000 Rh5AG132200 Rh5AG411000 Rh7CG017900
rosa_wichuraiana	Rw0G000820

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	629
AarI	CACCTGC	1 cut(s)	176
Acc36I	ACCTGC	1 cut(s)	176
AcsI	RAATTY	1 cut(s)	475
AcuI	CTGAAG	1 cut(s)	156
AfaI	GTAC	3 cut(s)	152, 219, 587
AgsI	TTSAA	1 cut(s)	74
AjnI	CCWGG	4 cut(s)	51, 285, 698, 748
AluBI	AGCT	6 cut(s)	13, 266, 397, 467, 676, 718
AluI	AGCT	6 cut(s)	13, 266, 397, 467, 676, 718
Alw21I	GWGCWC	1 cut(s)	513
ApeKI	GCWGC	1 cut(s)	203
ApoI	RAATTY	1 cut(s)	475
AseI	ATTAAT	1 cut(s)	299
AspS9I	GGNCC	2 cut(s)	550, 746
AsuHPI	GGTGA	1 cut(s)	275
AvaII	GGWCC	2 cut(s)	550, 746
BbsI	GAAGAC	1 cut(s)	651
Bbv12I	GWGCWC	1 cut(s)	513
BbvI	GCAGC	1 cut(s)	190
BccI	CCATC	2 cut(s)	459, 496
BciT130I	CCWGG	4 cut(s)	53, 287, 700, 750
BfaI	CTAG	1 cut(s)	561
BfmI	CTRYAG	1 cut(s)	183
BfuAI	ACCTGC	1 cut(s)	176
BisI	GCNGC	1 cut(s)	204
BlpI	GCTNAGC	1 cut(s)	507
BlsI	GCNGC	1 cut(s)	205
Bme1390I	CCNGG	4 cut(s)	53, 287, 700, 750
Bme18I	GGWCC	2 cut(s)	550, 746
BmgT120I	GGNCC	2 cut(s)	550, 746
BmiI	GGNNCC	3 cut(s)	352, 551, 754
BmrFI	CCNGG	4 cut(s)	53, 287, 700, 750
BpiI	GAAGAC	1 cut(s)	651
BpmI	CTGGAG	2 cut(s)	35, 279
Bpu1102I	GCTNAGC	1 cut(s)	507
BsaJI	CCNNGG	2 cut(s)	52, 354
Bse1I	ACTGG	2 cut(s)	262, 352
Bse3DI	GCAATG	1 cut(s)	129
BseBI	CCWGG	4 cut(s)	53, 287, 700, 750
BseDI	CCNNGG	2 cut(s)	52, 354
BseGI	GGATG	1 cut(s)	382
BseMI	GCAATG	1 cut(s)	129
BseMII	CTCAG	1 cut(s)	498
BseNI	ACTGG	2 cut(s)	262, 352
BseRI	GAGGAG	1 cut(s)	276
BseXI	GCAGC	1 cut(s)	190
BseYI	CCCAGC	1 cut(s)	463
BsiHKAI	GWGCWC	1 cut(s)	513
BslFI	GGGAC	2 cut(s)	172, 563
BsmFI	GGGAC	2 cut(s)	172, 563
Bsp1286I	GDGCHC	1 cut(s)	513
Bsp1407I	TGTACA	2 cut(s)	150, 585
Bsp143I	GATC	2 cut(s)	439, 643
Bsp1720I	GCTNAGC	1 cut(s)	507
BspCNI	CTCAG	1 cut(s)	499
BspHI	TCATGA	1 cut(s)	406
BspLI	GGNNCC	3 cut(s)	352, 551, 754
BspMAI	CTGCAG	1 cut(s)	187
BspMI	ACCTGC	1 cut(s)	176
BsrDI	GCAATG	1 cut(s)	129
BsrGI	TGTACA	2 cut(s)	150, 585
BsrI	ACTGG	2 cut(s)	262, 352
BssECI	CCNNGG	2 cut(s)	52, 354
BssMI	GATC	2 cut(s)	439, 643
BssT1I	CCWWGG	1 cut(s)	354
Bst2UI	CCWGG	4 cut(s)	53, 287, 700, 750
Bst4CI	ACNGT	2 cut(s)	590, 687
BstAUI	TGTACA	2 cut(s)	150, 585
BstC8I	GCNNGC	1 cut(s)	460
BstDEI	CTNAG	1 cut(s)	507
BstF5I	GGATG	1 cut(s)	382
BstKTI	GATC	2 cut(s)	442, 646
BstMBI	GATC	2 cut(s)	439, 643
BstMWI	GCNNNNNNNGC	2 cut(s)	102, 464
BstNI	CCWGG	4 cut(s)	53, 287, 700, 750
BstNSI	RCATGY	1 cut(s)	462
BstSCI	CCNGG	4 cut(s)	51, 285, 698, 748
BstSFI	CTRYAG	1 cut(s)	183
BstV1I	GCAGC	1 cut(s)	190
BstV2I	GAAGAC	1 cut(s)	651
BstXI	CCANNNNNNTGG	1 cut(s)	59
BtsCI	GGATG	1 cut(s)	382
BtsIMutI	CAGTG	3 cut(s)	345, 414, 595
BveI	ACCTGC	1 cut(s)	176
Cac8I	GCNNGC	1 cut(s)	460
CciI	TCATGA	1 cut(s)	406
Cfr13I	GGNCC	2 cut(s)	550, 746
CsiI	ACCWGGT	1 cut(s)	285
Csp6I	GTAC	3 cut(s)	151, 218, 586
CspCI	CAANNNNNGTGG	2 cut(s)	527, 562
CviAII	CATG	3 cut(s)	241, 407, 459
CviQI	GTAC	3 cut(s)	151, 218, 586
DdeI	CTNAG	1 cut(s)	507
DpnI	GATC	2 cut(s)	441, 645
DpnII	GATC	2 cut(s)	439, 643
Eco130I	CCWWGG	1 cut(s)	354
Eco47I	GGWCC	2 cut(s)	550, 746
Eco57I	CTGAAG	1 cut(s)	156
EcoO109I	RGGNCCY	1 cut(s)	746
EcoRII	CCWGG	4 cut(s)	51, 285, 698, 748
EcoT14I	CCWWGG	1 cut(s)	354
ErhI	CCWWGG	1 cut(s)	354
FaeI	CATG	3 cut(s)	244, 410, 462
FaqI	GGGAC	2 cut(s)	172, 563
FatI	CATG	3 cut(s)	240, 406, 458
Fnu4HI	GCNGC	1 cut(s)	204
FokI	GGATG	1 cut(s)	369
Fsp4HI	GCNGC	1 cut(s)	204
FspBI	CTAG	1 cut(s)	561
GluI	GCNGC	1 cut(s)	204
GsaI	CCCAGC	1 cut(s)	467
GsuI	CTGGAG	2 cut(s)	35, 279
Hin1II	CATG	3 cut(s)	244, 410, 462
HincII	GTYRAC	1 cut(s)	292
HindII	GTYRAC	1 cut(s)	292
HindIII	AAGCTT	1 cut(s)	716
HinfI	GANTC	6 cut(s)	28, 233, 246, 270, 695, 737
HphI	GGTGA	1 cut(s)	275
Hpy166II	GTNNAC	3 cut(s)	47, 292, 574
Hpy188I	TCNGA	2 cut(s)	180, 444
Hpy188III	TCNNGA	1 cut(s)	407
Hpy8I	GTNNAC	3 cut(s)	47, 292, 574
HpyCH4III	ACNGT	2 cut(s)	590, 687
HpyCH4V	TGCA	3 cut(s)	185, 458, 624
HpyF10VI	GCNNNNNNNGC	2 cut(s)	102, 464
HpyF3I	CTNAG	1 cut(s)	507
Hsp92II	CATG	3 cut(s)	244, 410, 462
Kzo9I	GATC	2 cut(s)	439, 643
LmnI	GCTCC	3 cut(s)	10, 263, 356
Lsp1109I	GCAGC	1 cut(s)	190
MabI	ACCWGGT	1 cut(s)	285
MaeI	CTAG	1 cut(s)	561
MaeIII	GTNAC	3 cut(s)	253, 412, 704
MalI	GATC	2 cut(s)	441, 645
MboI	GATC	2 cut(s)	439, 643
MboII	GAAGA	4 cut(s)	149, 201, 651, 775
MhlI	GDGCHC	1 cut(s)	513
MluCI	AATT	5 cut(s)	57, 140, 475, 581, 768
MlyI	GAGTC	1 cut(s)	242
MmeI	TCCRAC	2 cut(s)	261, 545
MnlI	CCTC	6 cut(s)	191, 254, 313, 427, 673, 727
MseI	TTAA	2 cut(s)	299, 366
MspR9I	CCNGG	4 cut(s)	53, 287, 700, 750
MvaI	CCWGG	4 cut(s)	53, 287, 700, 750
MwoI	GCNNNNNNNGC	2 cut(s)	102, 464
NdeII	GATC	2 cut(s)	439, 643
NlaIII	CATG	3 cut(s)	244, 410, 462
NlaIV	GGNNCC	3 cut(s)	352, 551, 754
NmuCI	GTSAC	1 cut(s)	412
NspI	RCATGY	1 cut(s)	462
PaeI	GCATGC	1 cut(s)	462
PagI	TCATGA	1 cut(s)	406
PaqCI	CACCTGC	1 cut(s)	176
PfeI	GAWTC	5 cut(s)	28, 246, 270, 695, 737
PfoI	TCCNGGA	1 cut(s)	698
PkrI	GCNGC	1 cut(s)	205
PleI	GAGTC	1 cut(s)	241
PpsI	GAGTC	1 cut(s)	241
PpuMI	RGGWCCY	1 cut(s)	746
PshBI	ATTAAT	1 cut(s)	299
PsiI	TTATAA	1 cut(s)	629
Psp5II	RGGWCCY	1 cut(s)	746
Psp6I	CCWGG	4 cut(s)	51, 285, 698, 748
PspFI	CCCAGC	1 cut(s)	463
PspGI	CCWGG	4 cut(s)	51, 285, 698, 748
PspN4I	GGNNCC	3 cut(s)	352, 551, 754
PspPI	GGNCC	2 cut(s)	550, 746
PspPPI	RGGWCCY	1 cut(s)	746
PstI	CTGCAG	1 cut(s)	187
RsaI	GTAC	3 cut(s)	152, 219, 587
RsaNI	GTAC	3 cut(s)	151, 218, 586
SaqAI	TTAA	2 cut(s)	299, 366
SatI	GCNGC	1 cut(s)	204
Sau3AI	GATC	2 cut(s)	439, 643
Sau96I	GGNCC	2 cut(s)	550, 746
SchI	GAGTC	1 cut(s)	242
ScrFI	CCNGG	4 cut(s)	53, 287, 700, 750
SduI	GDGCHC	1 cut(s)	513
SexAI	ACCWGGT	1 cut(s)	285
SfcI	CTRYAG	1 cut(s)	183
SinI	GGWCC	2 cut(s)	550, 746
SphI	GCATGC	1 cut(s)	462
Sse9I	AATT	5 cut(s)	57, 140, 475, 581, 768
SspMI	CTAG	1 cut(s)	561
StyD4I	CCNGG	4 cut(s)	51, 285, 698, 748
StyI	CCWWGG	1 cut(s)	354
TaaI	ACNGT	2 cut(s)	590, 687
TaqI	TCGA	2 cut(s)	31, 642
TasI	AATT	5 cut(s)	57, 140, 475, 581, 768
TatI	WGTACW	2 cut(s)	150, 585
TfiI	GAWTC	5 cut(s)	28, 246, 270, 695, 737
Tru1I	TTAA	2 cut(s)	299, 366
Tru9I	TTAA	2 cut(s)	299, 366
TscAI	CASTG	3 cut(s)	352, 421, 595
TseFI	GTSAC	1 cut(s)	412
TseI	GCWGC	1 cut(s)	203
Tsp45I	GTSAC	1 cut(s)	412
TspDTI	ATGAA	4 cut(s)	118, 262, 324, 594
TspRI	CASTG	3 cut(s)	352, 421, 595
VpaK11BI	GGWCC	2 cut(s)	550, 746
VspI	ATTAAT	1 cut(s)	299
XapI	RAATTY	1 cut(s)	475
XceI	RCATGY	1 cut(s)	462
XspI	CTAG	1 cut(s)	561

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