Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0001856

Physical Location & Seq

Genomic Coordinates Forward (+)

71734750 .. 71743137

Gene Structure 8388 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG449700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 483 bp

ATGAGAATCTTGGTTACTGGAGGAGCTGGATTCATTGGTTCTCACCTGGTTGACAGATTAATGGAAAATGAAAAGAATGAGGTTATTGTTGTTGATAACTACTTCACTGGCTCCAAGGACAATCTTAAAAAATGGATTGGTCATCCCAGATTTGAGCTTATTCGTCATGATGTCACTGAAACATTGTTGGTTGAGGTTGATCGGATATACCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATATAATCCTGTAAAGAGCTACACAACATCCACAATAGTCCTCATCACCTCCACAATACCTACAAAACCAGTGCCTCAAATCTCAGTGGCAGACCCGTCACAGCAACCAATGGACCACCCACCACGTTTCTCTCTCAAAGCCTCTACCTTTACCTCCCCAACCGCCGCTCATGACGCCCAAGATCGGAGTGAGAAGCAAGAGATCTACTACTTTACCTTGGCCACACCGGCGCCATAG

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

160

Amino Acids

17.99

Weight (kDa)

6.58

Isoelectric Point (pI)

37.74

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Epimerase	PF01370	3 - 78	5.1e-10	NAD dependent epimerase/dehydratase family
GDP_Man_Dehyd	PF16363	4 - 76	1.4e-10	GDP-mannose 4,6 dehydratase
3Beta_HSD	PF01073	4 - 61	5.4e-06	3-beta hydroxysteroid dehydrogenase/isomerase family

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Tree File

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001856)

Species	Orthologous Gene IDs
fragaria_vesca	FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550 FvH4_3g35550
malus_domestica	MD03G1096800.v1.1 MD11G1143300.v1.1
prunus_persica	Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1 Prupe.6G081100_v2.0.a1
pyrus_communis	pycom03g08000 pycom11g09310
rosa_chinensis	RchiOBHm_Chr5g0063761
rosa_laevigata	RLG00000035666
rosa_multiflora	Rmu_sc0002724.1_g000023
rosa_roxburghii	Rroxscaffold_1G00017090 Rroxscaffold_1G00037850 Rroxscaffold_3G00246740
rosa_rugosa	Rorug03G0248000 Rorug05G0359100 Rorug05G0359200 Rorug05G0359200 Rorug05G0359200 Rorug05G0359200 Rorug05G0359300 Rorug05G0359400
rosa_samantha	Rh2BG210700 Rh5AG128600 Rh5AG389400 Rh5BG433300 Rh5CG456500 Rh5DG446900 Rh5DG449700 Rh6AG145900
rosa_wichuraiana	Rw4G004490 Rw5G039270

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	475
AccBSI	CCGCTC	1 cut(s)	413
AciI	CCGC	2 cut(s)	408, 411
AcoI	YGGCCR	1 cut(s)	465
AcyI	GRCGYC	2 cut(s)	420, 476
AfiI	CCNNNNNNNGG	1 cut(s)	429
AjnI	CCWGG	1 cut(s)	45
AluBI	AGCT	4 cut(s)	26, 157, 227, 264
AluI	AGCT	4 cut(s)	26, 157, 227, 264
AoxI	GGCC	1 cut(s)	465
AseI	ATTAAT	1 cut(s)	59
AspLEI	GCGC	1 cut(s)	478
AspS9I	GGNCC	1 cut(s)	358
AsuHPI	GGTGA	2 cut(s)	35, 283
AvaII	GGWCC	1 cut(s)	358
BalI	TGGCCA	1 cut(s)	467
BanI	GGYRCC	1 cut(s)	475
BccI	CCATC	1 cut(s)	219
BciT130I	CCWGG	1 cut(s)	47
BfoI	RGCGCY	1 cut(s)	479
BglI	GCCNNNNNGGC	1 cut(s)	473
BglII	AGATCT	1 cut(s)	447
BisI	GCNGC	1 cut(s)	411
BlsI	GCNGC	1 cut(s)	412
Bme1390I	CCNGG	1 cut(s)	47
Bme18I	GGWCC	1 cut(s)	358
BmgT120I	GGNCC	1 cut(s)	358
BmiI	GGNNCC	2 cut(s)	112, 477
BmrFI	CCNGG	1 cut(s)	47
BpmI	CTGGAG	1 cut(s)	39
BsaHI	GRCGYC	2 cut(s)	420, 476
BsaJI	CCNNGG	2 cut(s)	114, 462
Bsc4I	CCNNNNNNNGG	1 cut(s)	429
Bse118I	RCCGGY	1 cut(s)	472
Bse1I	ACTGG	3 cut(s)	22, 112, 314
BseBI	CCWGG	1 cut(s)	47
BseDI	CCNNGG	2 cut(s)	114, 462
BseGI	GGATG	2 cut(s)	142, 272
BseLI	CCNNNNNNNGG	1 cut(s)	429
BseMII	CTCAG	1 cut(s)	342
BseNI	ACTGG	3 cut(s)	22, 112, 314
BseRI	GAGGAG	1 cut(s)	36
BseYI	CCCAGC	1 cut(s)	223
BshFI	GGCC	1 cut(s)	467
BshNI	GGYRCC	1 cut(s)	475
BsiSI	CCGG	1 cut(s)	473
BslI	CCNNNNNNNGG	1 cut(s)	429
BsnI	GGCC	1 cut(s)	467
Bsp143I	GATC	3 cut(s)	199, 427, 447
BspACI	CCGC	2 cut(s)	408, 411
BspANI	GGCC	1 cut(s)	467
BspCNI	CTCAG	1 cut(s)	341
BspHI	TCATGA	2 cut(s)	166, 415
BspLI	GGNNCC	2 cut(s)	112, 477
BspT107I	GGYRCC	1 cut(s)	475
BsrBI	CCGCTC	1 cut(s)	413
BsrFI	RCCGGY	1 cut(s)	472
BsrI	ACTGG	3 cut(s)	22, 112, 314
BssAI	RCCGGY	1 cut(s)	472
BssECI	CCNNGG	2 cut(s)	114, 462
BssMI	GATC	3 cut(s)	199, 427, 447
BssNI	GRCGYC	2 cut(s)	420, 476
BssT1I	CCWWGG	2 cut(s)	114, 462
Bst2UI	CCWGG	1 cut(s)	47
BstACI	GRCGYC	2 cut(s)	420, 476
BstC8I	GCNNGC	1 cut(s)	220
BstDEI	CTNAG	1 cut(s)	328
BstF5I	GGATG	2 cut(s)	142, 272
BstH2I	RGCGCY	1 cut(s)	479
BstHHI	GCGC	1 cut(s)	478
BstKTI	GATC	3 cut(s)	202, 430, 450
BstMBI	GATC	3 cut(s)	199, 427, 447
BstMWI	GCNNNNNNNGC	3 cut(s)	224, 419, 473
BstNI	CCWGG	1 cut(s)	47
BstNSI	RCATGY	1 cut(s)	222
BstSCI	CCNGG	1 cut(s)	45
BstX2I	RGATCY	1 cut(s)	447
BstYI	RGATCY	1 cut(s)	447
BsuRI	GGCC	1 cut(s)	467
BtsCI	GGATG	2 cut(s)	142, 272
BtsIMutI	CAGTG	4 cut(s)	105, 174, 321, 336
Cac8I	GCNNGC	1 cut(s)	220
CciI	TCATGA	2 cut(s)	166, 415
CfoI	GCGC	1 cut(s)	478
Cfr10I	RCCGGY	1 cut(s)	472
Cfr13I	GGNCC	1 cut(s)	358
CseI	GACGC	1 cut(s)	428
CsiI	ACCWGGT	1 cut(s)	45
CviAII	CATG	3 cut(s)	167, 219, 416
CviJI	RGCY	7 cut(s)	26, 111, 157, 227, 264, 386, 467
CviKI_1	RGCY	7 cut(s)	26, 111, 157, 227, 264, 386, 467
DdeI	CTNAG	1 cut(s)	328
DinI	GGCGCC	1 cut(s)	477
DpnI	GATC	3 cut(s)	201, 429, 449
DpnII	GATC	3 cut(s)	199, 427, 447
EaeI	YGGCCR	1 cut(s)	465
Eco130I	CCWWGG	2 cut(s)	114, 462
Eco47I	GGWCC	1 cut(s)	358
EcoRII	CCWGG	1 cut(s)	45
EcoT14I	CCWWGG	2 cut(s)	114, 462
EgeI	GGCGCC	1 cut(s)	477
EheI	GGCGCC	1 cut(s)	477
ErhI	CCWWGG	2 cut(s)	114, 462
FaeI	CATG	3 cut(s)	170, 222, 419
FaiI	YATR	6 cut(s)	168, 208, 220, 249, 417, 481
FatI	CATG	3 cut(s)	166, 218, 415
Fnu4HI	GCNGC	1 cut(s)	411
FokI	GGATG	2 cut(s)	129, 259
Fsp4HI	GCNGC	1 cut(s)	411
GlaI	GCGC	1 cut(s)	477
GluI	GCNGC	1 cut(s)	411
GsaI	CCCAGC	1 cut(s)	227
GsuI	CTGGAG	1 cut(s)	39
HaeII	RGCGCY	1 cut(s)	479
HaeIII	GGCC	1 cut(s)	467
HapII	CCGG	1 cut(s)	473
HgaI	GACGC	1 cut(s)	428
HhaI	GCGC	1 cut(s)	478
Hin1I	GRCGYC	2 cut(s)	420, 476
Hin1II	CATG	3 cut(s)	170, 222, 419
Hin6I	GCGC	1 cut(s)	476
HinP1I	GCGC	1 cut(s)	476
HincII	GTYRAC	1 cut(s)	52
HindII	GTYRAC	1 cut(s)	52
HinfI	GANTC	2 cut(s)	6, 30
HpaII	CCGG	1 cut(s)	473
HphI	GGTGA	2 cut(s)	35, 283
Hpy166II	GTNNAC	1 cut(s)	52
Hpy188I	TCNGA	2 cut(s)	204, 432
Hpy188III	TCNNGA	2 cut(s)	167, 416
Hpy8I	GTNNAC	1 cut(s)	52
HpyCH4IV	ACGT	1 cut(s)	370
HpyCH4V	TGCA	1 cut(s)	218
HpyF10VI	GCNNNNNNNGC	3 cut(s)	224, 419, 473
HpyF3I	CTNAG	1 cut(s)	328
HpySE526I	ACGT	1 cut(s)	370
Hsp92I	GRCGYC	2 cut(s)	420, 476
Hsp92II	CATG	3 cut(s)	170, 222, 419
HspAI	GCGC	1 cut(s)	476
KasI	GGCGCC	1 cut(s)	475
Kzo9I	GATC	3 cut(s)	199, 427, 447
LmnI	GCTCC	2 cut(s)	23, 116
LpnPI	CCDG	9 cut(s)	3, 12, 32, 59, 93, 160, 237, 267, 327
MabI	ACCWGGT	1 cut(s)	45
MaeII	ACGT	1 cut(s)	370
MaeIII	GTNAC	3 cut(s)	13, 172, 342
MalI	GATC	3 cut(s)	201, 429, 449
MbiI	CCGCTC	1 cut(s)	413
MboI	GATC	3 cut(s)	199, 427, 447
MflI	RGATCY	1 cut(s)	447
MlsI	TGGCCA	1 cut(s)	467
MluCI	AATT	1 cut(s)	234
MluNI	TGGCCA	1 cut(s)	467
Mly113I	GGCGCC	1 cut(s)	476
MnlI	CCTC	8 cut(s)	14, 73, 187, 296, 304, 330, 397, 409
Mox20I	TGGCCA	1 cut(s)	467
MscI	TGGCCA	1 cut(s)	467
MseI	TTAA	2 cut(s)	59, 126
Msp20I	TGGCCA	1 cut(s)	467
MspI	CCGG	1 cut(s)	473
MspR9I	CCNGG	1 cut(s)	47
MvaI	CCWGG	1 cut(s)	47
MwoI	GCNNNNNNNGC	3 cut(s)	224, 419, 473
NarI	GGCGCC	1 cut(s)	476
NdeII	GATC	3 cut(s)	199, 427, 447
NlaIII	CATG	3 cut(s)	170, 222, 419
NlaIV	GGNNCC	2 cut(s)	112, 477
NmuCI	GTSAC	2 cut(s)	172, 342
NspI	RCATGY	1 cut(s)	222
PaeI	GCATGC	1 cut(s)	222
PagI	TCATGA	2 cut(s)	166, 415
PfeI	GAWTC	2 cut(s)	6, 30
PkrI	GCNGC	1 cut(s)	412
PluTI	GGCGCC	1 cut(s)	479
PshBI	ATTAAT	1 cut(s)	59
Psp6I	CCWGG	1 cut(s)	45
PspFI	CCCAGC	1 cut(s)	223
PspGI	CCWGG	1 cut(s)	45
PspN4I	GGNNCC	2 cut(s)	112, 477
PspPI	GGNCC	1 cut(s)	358
PsuI	RGATCY	1 cut(s)	447
SaqAI	TTAA	2 cut(s)	59, 126
SatI	GCNGC	1 cut(s)	411
Sau3AI	GATC	3 cut(s)	199, 427, 447
Sau96I	GGNCC	1 cut(s)	358
ScrFI	CCNGG	1 cut(s)	47
SexAI	ACCWGGT	1 cut(s)	45
SfoI	GGCGCC	1 cut(s)	477
SgrAI	CRCCGGYG	1 cut(s)	472
SinI	GGWCC	1 cut(s)	358
SphI	GCATGC	1 cut(s)	222
Sse9I	AATT	1 cut(s)	234
SsiI	CCGC	2 cut(s)	408, 411
SspDI	GGCGCC	1 cut(s)	475
StyD4I	CCNGG	1 cut(s)	45
StyI	CCWWGG	2 cut(s)	114, 462
TaiI	ACGT	1 cut(s)	373
TasI	AATT	1 cut(s)	234
TauI	GCSGC	1 cut(s)	413
TfiI	GAWTC	2 cut(s)	6, 30
Tru1I	TTAA	2 cut(s)	59, 126
Tru9I	TTAA	2 cut(s)	59, 126
TscAI	CASTG	4 cut(s)	112, 181, 321, 336
TseFI	GTSAC	2 cut(s)	172, 342
Tsp45I	GTSAC	2 cut(s)	172, 342
TspDTI	ATGAA	2 cut(s)	22, 84
TspRI	CASTG	4 cut(s)	112, 181, 321, 336
VpaK11BI	GGWCC	1 cut(s)	358
VspI	ATTAAT	1 cut(s)	59
XceI	RCATGY	1 cut(s)	222

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