Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0001856

Physical Location & Seq

Genomic Coordinates Forward (+)

67390517 .. 67397230

Gene Structure 6714 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG389400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 534 bp

ATGAGAATCTTGGTTACTGGAGGAGCTGGATTCATTGGTTCTCACCTGGTTGACAGATTAATGGAAAATGAAAAGAATGAGGTTATTGTTGTTGATAACTACTTCACTGGCTCCAAGGACAATCTTAAAAAATGGATTGGTCATCCCAGATTTGAGCTTATTCGTCATGATGTCACTGAAACATTGTTGGTTGAGGTTGATCGGATATACCATCTTGCATGCCCAGCTTCTCCAATTTTCTACAAATATAATCATGTAAAGACAATAAAAACAAATGATAATCTTATCCAAGGCCGTTTCCTTGCTGAGCTGACAAAGCAAGTGTTTTCTGATCTTTCTGCCAGTAAATATCAGATGGCTGAGCACAGAATATCAAAATATGGCAAGAAGCAAAGTGAGTGGGACCAAATGGCTAGTTGGATAGTGAACAATGAATTGTACAGTGAGAATGTTGTACGGTTGATACAGGCCAATATAATTGGAAGGGATGATTTGGAGGTTAATACACTTGCAAAAGGTACACCAAAGCTTTAG

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

177

Amino Acids

20.37

Weight (kDa)

7.85

Isoelectric Point (pI)

20.47

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Epimerase	PF01370	3 - 92	2.5e-10	NAD dependent epimerase/dehydratase family
GDP_Man_Dehyd	PF16363	4 - 76	2e-10	GDP-mannose 4,6 dehydratase
3Beta_HSD	PF01073	4 - 61	5.4e-06	3-beta hydroxysteroid dehydrogenase/isomerase family
AMP_deaminase	PF19326	92 - 157	1e-25	AMP deaminase

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Publication-ready

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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)
AfaI	GTAC	3 cut(s)	440, 456, 520
AjnI	CCWGG	1 cut(s)	45
AluBI	AGCT	5 cut(s)	26, 157, 227, 310, 529
AluI	AGCT	5 cut(s)	26, 157, 227, 310, 529
Alw21I	GWGCWC	1 cut(s)	366
AoxI	GGCC	2 cut(s)	292, 468
AseI	ATTAAT	1 cut(s)	59
AspS9I	GGNCC	1 cut(s)	403
AsuHPI	GGTGA	1 cut(s)	35
AvaII	GGWCC	1 cut(s)	403
Bbv12I	GWGCWC	1 cut(s)	366
BccI	CCATC	2 cut(s)	219, 349
BceAI	ACGGC	1 cut(s)	279
BciT130I	CCWGG	1 cut(s)	47
BfaI	CTAG	1 cut(s)	414
BlpI	GCTNAGC	2 cut(s)	306, 360
Bme1390I	CCNGG	1 cut(s)	47
Bme18I	GGWCC	1 cut(s)	403
BmgT120I	GGNCC	1 cut(s)	403
BmiI	GGNNCC	2 cut(s)	112, 404
BmrFI	CCNGG	1 cut(s)	47
BpmI	CTGGAG	1 cut(s)	39
Bpu1102I	GCTNAGC	2 cut(s)	306, 360
BsaJI	CCNNGG	2 cut(s)	114, 289
Bse1I	ACTGG	3 cut(s)	22, 112, 342
BseBI	CCWGG	1 cut(s)	47
BseDI	CCNNGG	2 cut(s)	114, 289
BseGI	GGATG	2 cut(s)	142, 493
BseMII	CTCAG	2 cut(s)	297, 351
BseNI	ACTGG	3 cut(s)	22, 112, 342
BseRI	GAGGAG	1 cut(s)	36
BseYI	CCCAGC	1 cut(s)	223
BshFI	GGCC	2 cut(s)	294, 470
BsiHKAI	GWGCWC	1 cut(s)	366
BslFI	GGGAC	1 cut(s)	416
BsmFI	GGGAC	1 cut(s)	416
BsnI	GGCC	2 cut(s)	294, 470
Bsp1286I	GDGCHC	1 cut(s)	366
Bsp1407I	TGTACA	1 cut(s)	438
Bsp143I	GATC	2 cut(s)	199, 331
Bsp1720I	GCTNAGC	2 cut(s)	306, 360
BspANI	GGCC	2 cut(s)	294, 470
BspCNI	CTCAG	2 cut(s)	298, 352
BspHI	TCATGA	1 cut(s)	166
BspLI	GGNNCC	2 cut(s)	112, 404
BsrGI	TGTACA	1 cut(s)	438
BsrI	ACTGG	3 cut(s)	22, 112, 342
BssECI	CCNNGG	2 cut(s)	114, 289
BssMI	GATC	2 cut(s)	199, 331
BssT1I	CCWWGG	2 cut(s)	114, 289
Bst2UI	CCWGG	1 cut(s)	47
Bst4CI	ACNGT	2 cut(s)	443, 459
BstAUI	TGTACA	1 cut(s)	438
BstC8I	GCNNGC	1 cut(s)	220
BstDEI	CTNAG	2 cut(s)	306, 360
BstF5I	GGATG	2 cut(s)	142, 493
BstKTI	GATC	2 cut(s)	202, 334
BstMBI	GATC	2 cut(s)	199, 331
BstMWI	GCNNNNNNNGC	2 cut(s)	224, 316
BstNI	CCWGG	1 cut(s)	47
BstNSI	RCATGY	1 cut(s)	222
BstSCI	CCNGG	1 cut(s)	45
BsuRI	GGCC	2 cut(s)	294, 470
BtsCI	GGATG	2 cut(s)	142, 493
BtsIMutI	CAGTG	3 cut(s)	105, 174, 448
Cac8I	GCNNGC	1 cut(s)	220
CciI	TCATGA	1 cut(s)	166
Cfr13I	GGNCC	1 cut(s)	403
CsiI	ACCWGGT	1 cut(s)	45
Csp6I	GTAC	3 cut(s)	439, 455, 519
CspCI	CAANNNNNGTGG	2 cut(s)	380, 415
CviAII	CATG	3 cut(s)	167, 219, 254
CviQI	GTAC	3 cut(s)	439, 455, 519
DdeI	CTNAG	2 cut(s)	306, 360
DpnI	GATC	2 cut(s)	201, 333
DpnII	GATC	2 cut(s)	199, 331
Eco130I	CCWWGG	2 cut(s)	114, 289
Eco47I	GGWCC	1 cut(s)	403
EcoRII	CCWGG	1 cut(s)	45
EcoT14I	CCWWGG	2 cut(s)	114, 289
ErhI	CCWWGG	2 cut(s)	114, 289
FaeI	CATG	3 cut(s)	170, 222, 257
FaiI	YATR	7 cut(s)	168, 208, 220, 249, 255, 381, 476
FaqI	GGGAC	1 cut(s)	416
FatI	CATG	3 cut(s)	166, 218, 253
FokI	GGATG	2 cut(s)	129, 500
FspBI	CTAG	1 cut(s)	414
GsaI	CCCAGC	1 cut(s)	227
GsuI	CTGGAG	1 cut(s)	39
HaeIII	GGCC	2 cut(s)	294, 470
Hin1II	CATG	3 cut(s)	170, 222, 257
HincII	GTYRAC	1 cut(s)	52
HindII	GTYRAC	1 cut(s)	52
HindIII	AAGCTT	1 cut(s)	527
HinfI	GANTC	2 cut(s)	6, 30
HphI	GGTGA	1 cut(s)	35
Hpy166II	GTNNAC	3 cut(s)	52, 427, 521
Hpy188I	TCNGA	3 cut(s)	204, 331, 354
Hpy188III	TCNNGA	1 cut(s)	167
Hpy8I	GTNNAC	3 cut(s)	52, 427, 521
HpyAV	CCTTC	1 cut(s)	477
HpyCH4III	ACNGT	2 cut(s)	443, 459
HpyCH4V	TGCA	2 cut(s)	218, 512
HpyF10VI	GCNNNNNNNGC	2 cut(s)	224, 316
HpyF3I	CTNAG	2 cut(s)	306, 360
Hsp92II	CATG	3 cut(s)	170, 222, 257
Kzo9I	GATC	2 cut(s)	199, 331
LmnI	GCTCC	2 cut(s)	23, 116
LpnPI	CCDG	9 cut(s)	3, 12, 32, 59, 93, 160, 237, 355, 452
MabI	ACCWGGT	1 cut(s)	45
MaeI	CTAG	1 cut(s)	414
MaeIII	GTNAC	2 cut(s)	13, 172
MalI	GATC	2 cut(s)	201, 333
MboI	GATC	2 cut(s)	199, 331
MhlI	GDGCHC	1 cut(s)	366
MluCI	AATT	3 cut(s)	234, 434, 477
MmeI	TCCRAC	1 cut(s)	398
MnlI	CCTC	4 cut(s)	14, 73, 187, 490
MseI	TTAA	3 cut(s)	59, 126, 501
MspR9I	CCNGG	1 cut(s)	47
MvaI	CCWGG	1 cut(s)	47
MwoI	GCNNNNNNNGC	2 cut(s)	224, 316
NdeII	GATC	2 cut(s)	199, 331
NlaIII	CATG	3 cut(s)	170, 222, 257
NlaIV	GGNNCC	2 cut(s)	112, 404
NmuCI	GTSAC	1 cut(s)	172
NspI	RCATGY	1 cut(s)	222
PaeI	GCATGC	1 cut(s)	222
PagI	TCATGA	1 cut(s)	166
PfeI	GAWTC	2 cut(s)	6, 30
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, 404
PspPI	GGNCC	1 cut(s)	403
RsaI	GTAC	3 cut(s)	440, 456, 520
RsaNI	GTAC	3 cut(s)	439, 455, 519
SaqAI	TTAA	3 cut(s)	59, 126, 501
Sau3AI	GATC	2 cut(s)	199, 331
Sau96I	GGNCC	1 cut(s)	403
ScrFI	CCNGG	1 cut(s)	47
SduI	GDGCHC	1 cut(s)	366
SexAI	ACCWGGT	1 cut(s)	45
SinI	GGWCC	1 cut(s)	403
SphI	GCATGC	1 cut(s)	222
Sse9I	AATT	3 cut(s)	234, 434, 477
SspMI	CTAG	1 cut(s)	414
StyD4I	CCNGG	1 cut(s)	45
StyI	CCWWGG	2 cut(s)	114, 289
TaaI	ACNGT	2 cut(s)	443, 459
TasI	AATT	3 cut(s)	234, 434, 477
TatI	WGTACW	1 cut(s)	438
TfiI	GAWTC	2 cut(s)	6, 30
Tru1I	TTAA	3 cut(s)	59, 126, 501
Tru9I	TTAA	3 cut(s)	59, 126, 501
TscAI	CASTG	3 cut(s)	112, 181, 448
TseFI	GTSAC	1 cut(s)	172
Tsp45I	GTSAC	1 cut(s)	172
TspDTI	ATGAA	3 cut(s)	22, 84, 447
TspRI	CASTG	3 cut(s)	112, 181, 448
VpaK11BI	GGWCC	1 cut(s)	403
VspI	ATTAAT	1 cut(s)	59
XceI	RCATGY	1 cut(s)	222
XspI	CTAG	1 cut(s)	414

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