Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr1B

Orthogroup ID

OG0002578

Physical Location & Seq

Genomic Coordinates Forward (+)

7992365 .. 7997649

Gene Structure 5285 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh1BG054400.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 789 bp

ATGATTGGGAGGAAGAACATGGGGCATGCTTCACCATTACTTCTGGTTCTCTTGGCTTTTGGGTTTTTCTTTGCCACTTACAATCTTTTGACGATGATACTCCACTATAGATCTGTTGGGAAGTGGGCAGGTGGTAATACTAACAGTCGTTTACTGGCTGACCCCATTGTCGAGATGCCTGAGAATGTGAAAGTCAAAGGTTCCAAAGCACCATTCCATGTTGCCTTAACAGCAACGGATGCTCCTTATAGTAAATGGCAGTGTCGCATTATGTACTATTGGTATAAGAAGAAGAAGGACATGCCTGGATCAGAAATGGGAGGATTTACTCGAATTTTGCATTCGGGAAGACCTGATAACTTGATGAATGAGATTCCCACTATGGTGGTTGATCCTCTGCCTGCTGGTCTTGATCGGGGATATATTGTCTTAAATAGGCCATGGGCTTTTGTGCAATGGCTGGAAAAGGCTACAATTGAGGAAGAATATGTGTTGATGGCAGAGCCTGATCATATATTTATAAATCCTCTTCCTAATTTGGCCCATGGAGGATATCCTGCTGCCTTCCCCTTTTTCTACATTAAACCTACACAGAATGAGAAGATCATAAGAAAGTTTTACCCCAAAGAGAATGGCCCAGTCACAAATATTGATCCAATTGGAAATTCTCCAGTAATTATCAAGAAGGATATGCTGGAAAAGATTGCTCCGACATGGATGAATATTTCTTTGAGCATGAAAGAAGACACAGAGACTGATAAAGCTTTTGGATGGGTGCTAGAAATGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005768 GO:0005794 GO:0005802 GO:0012505 GO:0016740 GO:0016757 GO:0016763 GO:0031410 GO:0031982 GO:0031984 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044422 GO:0044424 GO:0044431 GO:0044444 GO:0044446 GO:0044464 GO:0097708 GO:0098791 GO:1990585

KEGG Pathways

Metabolic & Signaling

ko00514 map00514

Pfam Domains

Protein Families

No domains found.

Protein Analysis

262

Amino Acids

29.83

Weight (kDa)

8.75

Isoelectric Point (pI)

39.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HPAT	PF23452	72 - 262	2.6e-86	Hydroxyproline O-arabinosyltransferase family

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: OG0002578)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G25260 AT5G13500 AT5G13500 AT5G13500
fragaria_vesca	FvH4_7g03230
malus_domestica	MD02G1284100.v1.1 MD03G1165800.v1.1 MD07G1050100.v1.1
prunus_persica	Prupe.2G038500_v2.0.a1 Prupe.2G038500_v2.0.a1 Prupe.2G038500_v2.0.a1 Prupe.4G266100_v2.0.a1 Prupe.4G266100_v2.0.a1
pyrus_communis	pycom02g24210 pycom03g12050 pycom07g03590
rosa_chinensis	RchiOBHm_Chr1g0325271 RchiOBHm_Chr5g0050591
rosa_laevigata	RLG00000030148 RLG00000034710
rosa_multiflora	Rmu_sc0001654.1_g000029 Rmu_sc0001954.1_g000008 Rmu_sc0007742.1_g000031
rosa_roxburghii	Rroxscaffold_1G00030260 Rroxscaffold_4G00324840
rosa_rugosa	Rorug01G0050900 Rorug01G0051000 Rorug01G0051100 Rorug05G0262100
rosa_samantha	Rh1AG066300 Rh1BG054400 Rh1CG067700 Rh1DG072500 Rh5AG334000 Rh5AG334100 Rh5BG343600 Rh5CG371200 Rh5DG356400
rosa_wichuraiana	Rw1G005540 Rw5G031510

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AanI	TTATAA	1 cut(s)	521
AarI	CACCTGC	1 cut(s)	119
AasI	GACNNNNNNGTC	1 cut(s)	167
Acc36I	ACCTGC	1 cut(s)	119
AclWI	GGATC	3 cut(s)	316, 386, 647
AcsI	RAATTY	2 cut(s)	333, 664
AfaI	GTAC	1 cut(s)	275
AjnI	CCWGG	1 cut(s)	304
AjuI	GAANNNNNNNTTGG	4 cut(s)	197, 229, 649, 681
AleI	CACNNNNGTG	1 cut(s)	383
AluBI	AGCT	1 cut(s)	764
AluI	AGCT	1 cut(s)	764
Alw26I	GTCTC	1 cut(s)	746
AlwI	GGATC	3 cut(s)	316, 386, 647
AlwNI	CAGNNNCTG	2 cut(s)	506, 755
AoxI	GGCC	3 cut(s)	437, 540, 634
ApeKI	GCWGC	1 cut(s)	560
ApoI	RAATTY	2 cut(s)	333, 664
AspS9I	GGNCC	2 cut(s)	541, 635
AsuHPI	GGTGA	1 cut(s)	24
BbsI	GAAGAC	2 cut(s)	355, 750
BbvI	GCAGC	1 cut(s)	547
BccI	CCATC	2 cut(s)	490, 765
BciT130I	CCWGG	1 cut(s)	306
BclI	TGATCA	1 cut(s)	508
BcoDI	GTCTC	1 cut(s)	746
BfaI	CTAG	1 cut(s)	779
BfmI	CTRYAG	1 cut(s)	106
BfuAI	ACCTGC	1 cut(s)	119
BglII	AGATCT	1 cut(s)	110
BisI	GCNGC	1 cut(s)	561
BlsI	GCNGC	1 cut(s)	562
Bme1390I	CCNGG	1 cut(s)	306
BmgT120I	GGNCC	2 cut(s)	541, 635
BmiI	GGNNCC	1 cut(s)	202
BmrFI	CCNGG	1 cut(s)	306
BmrI	ACTGGG	1 cut(s)	632
BmsI	GCATC	2 cut(s)	165, 229
BmuI	ACTGGG	1 cut(s)	632
BpiI	GAAGAC	2 cut(s)	355, 750
BpmI	CTGGAG	1 cut(s)	654
BsaJI	CCNNGG	2 cut(s)	440, 544
BsaXI	ACNNNNNCTCC	2 cut(s)	226, 256
Bse1I	ACTGG	3 cut(s)	159, 638, 671
Bse3DI	GCAATG	1 cut(s)	461
BseBI	CCWGG	1 cut(s)	306
BseDI	CCNNGG	2 cut(s)	440, 544
BseGI	GGATG	3 cut(s)	244, 723, 776
BseMI	GCAATG	1 cut(s)	461
BseMII	CTCAG	1 cut(s)	171
BseNI	ACTGG	3 cut(s)	159, 638, 671
BseXI	GCAGC	1 cut(s)	547
BshFI	GGCC	3 cut(s)	439, 542, 636
BsmAI	GTCTC	1 cut(s)	746
BsmI	GAATGC	1 cut(s)	340
BsnI	GGCC	3 cut(s)	439, 542, 636
Bsp143I	GATC	7 cut(s)	110, 308, 391, 412, 508, 603, 652
Bsp19I	CCATGG	2 cut(s)	440, 544
BspANI	GGCC	3 cut(s)	439, 542, 636
BspCNI	CTCAG	1 cut(s)	172
BspLI	GGNNCC	1 cut(s)	202
BspMI	ACCTGC	1 cut(s)	119
BspPI	GGATC	3 cut(s)	316, 386, 647
BsrDI	GCAATG	1 cut(s)	461
BsrI	ACTGG	3 cut(s)	159, 638, 671
BssECI	CCNNGG	2 cut(s)	440, 544
BssMI	GATC	7 cut(s)	110, 308, 391, 412, 508, 603, 652
BssT1I	CCWWGG	2 cut(s)	440, 544
Bst2UI	CCWGG	1 cut(s)	306
Bst4CI	ACNGT	1 cut(s)	146
Bst6I	CTCTTC	1 cut(s)	534
BstAPI	GCANNNNNTGC	1 cut(s)	239
BstC8I	GCNNGC	2 cut(s)	27, 402
BstDEI	CTNAG	1 cut(s)	180
BstDSI	CCRYGG	2 cut(s)	440, 544
BstF5I	GGATG	3 cut(s)	244, 723, 776
BstKTI	GATC	7 cut(s)	113, 311, 394, 415, 511, 606, 655
BstMAI	GTCTC	1 cut(s)	746
BstMBI	GATC	7 cut(s)	110, 308, 391, 412, 508, 603, 652
BstMWI	GCNNNNNNNGC	2 cut(s)	230, 239
BstNI	CCWGG	1 cut(s)	306
BstNSI	RCATGY	2 cut(s)	29, 304
BstSCI	CCNGG	1 cut(s)	304
BstSFI	CTRYAG	1 cut(s)	106
BstV1I	GCAGC	1 cut(s)	547
BstV2I	GAAGAC	2 cut(s)	355, 750
BstX2I	RGATCY	1 cut(s)	110
BstXI	CCANNNNNNTGG	1 cut(s)	385
BstYI	RGATCY	1 cut(s)	110
BsuRI	GGCC	3 cut(s)	439, 542, 636
BtgI	CCRYGG	2 cut(s)	440, 544
BtsCI	GGATG	3 cut(s)	244, 723, 776
BtsI	GCAGTG	1 cut(s)	266
BtsIMutI	CAGTG	1 cut(s)	266
BveI	ACCTGC	1 cut(s)	119
Cac8I	GCNNGC	2 cut(s)	27, 402
CaiI	CAGNNNCTG	2 cut(s)	506, 755
Cfr13I	GGNCC	2 cut(s)	541, 635
Csp6I	GTAC	1 cut(s)	274
CviAII	CATG	8 cut(s)	19, 26, 218, 301, 441, 545, 714, 736
CviQI	GTAC	1 cut(s)	274
DdeI	CTNAG	1 cut(s)	180
DpnI	GATC	7 cut(s)	112, 310, 393, 414, 510, 605, 654
DpnII	GATC	7 cut(s)	110, 308, 391, 412, 508, 603, 652
DrdI	GACNNNNNNGTC	1 cut(s)	167
DseDI	GACNNNNNNGTC	1 cut(s)	167
Eam1104I	CTCTTC	1 cut(s)	534
EarI	CTCTTC	1 cut(s)	534
Eco130I	CCWWGG	2 cut(s)	440, 544
Eco32I	GATATC	1 cut(s)	554
EcoRII	CCWGG	1 cut(s)	304
EcoRV	GATATC	1 cut(s)	554
EcoT14I	CCWWGG	2 cut(s)	440, 544
ErhI	CCWWGG	2 cut(s)	440, 544
FaeI	CATG	8 cut(s)	22, 29, 221, 304, 444, 548, 717, 739
FatI	CATG	8 cut(s)	18, 25, 217, 300, 440, 544, 713, 735
FbaI	TGATCA	1 cut(s)	508
Fnu4HI	GCNGC	1 cut(s)	561
FokI	GGATG	3 cut(s)	251, 730, 783
Fsp4HI	GCNGC	1 cut(s)	561
FspBI	CTAG	1 cut(s)	779
GluI	GCNGC	1 cut(s)	561
GsuI	CTGGAG	1 cut(s)	654
HaeIII	GGCC	3 cut(s)	439, 542, 636
Hin1II	CATG	8 cut(s)	22, 29, 221, 304, 444, 548, 717, 739
HindIII	AAGCTT	1 cut(s)	762
HinfI	GANTC	1 cut(s)	373
HphI	GGTGA	1 cut(s)	24
Hpy166II	GTNNAC	1 cut(s)	152
Hpy188I	TCNGA	2 cut(s)	313, 711
Hpy188III	TCNNGA	4 cut(s)	172, 345, 410, 682
Hpy8I	GTNNAC	1 cut(s)	152
HpyAV	CCTTC	3 cut(s)	289, 574, 679
HpyCH4III	ACNGT	1 cut(s)	146
HpyCH4V	TGCA	2 cut(s)	340, 454
HpyF10VI	GCNNNNNNNGC	2 cut(s)	230, 239
HpyF3I	CTNAG	1 cut(s)	180
Hsp92II	CATG	8 cut(s)	22, 29, 221, 304, 444, 548, 717, 739
Ksp22I	TGATCA	1 cut(s)	508
Kzo9I	GATC	7 cut(s)	110, 308, 391, 412, 508, 603, 652
LmnI	GCTCC	2 cut(s)	247, 712
Lsp1109I	GCAGC	1 cut(s)	547
LweI	GCATC	2 cut(s)	165, 229
MaeI	CTAG	1 cut(s)	779
MaeIII	GTNAC	1 cut(s)	640
MalI	GATC	7 cut(s)	112, 310, 393, 414, 510, 605, 654
MboI	GATC	7 cut(s)	110, 308, 391, 412, 508, 603, 652
MboII	GAAGA	8 cut(s)	25, 301, 304, 360, 494, 521, 613, 755
MfeI	CAATTG	2 cut(s)	474, 657
MflI	RGATCY	1 cut(s)	110
MluCI	AATT	6 cut(s)	333, 474, 535, 657, 664, 675
MmeI	TCCRAC	1 cut(s)	734
MnlI	CCTC	6 cut(s)	3, 314, 405, 472, 537, 542
MseI	TTAA	3 cut(s)	227, 431, 582
MslI	CAYNNNNRTG	1 cut(s)	383
MspR9I	CCNGG	1 cut(s)	306
MunI	CAATTG	2 cut(s)	474, 657
Mva1269I	GAATGC	1 cut(s)	340
MvaI	CCWGG	1 cut(s)	306
MwoI	GCNNNNNNNGC	2 cut(s)	230, 239
NcoI	CCATGG	2 cut(s)	440, 544
NdeII	GATC	7 cut(s)	110, 308, 391, 412, 508, 603, 652
NlaIII	CATG	8 cut(s)	22, 29, 221, 304, 444, 548, 717, 739
NlaIV	GGNNCC	1 cut(s)	202
NmuCI	GTSAC	1 cut(s)	640
NspI	RCATGY	2 cut(s)	29, 304
OliI	CACNNNNGTG	1 cut(s)	383
PaeI	GCATGC	1 cut(s)	29
PaqCI	CACCTGC	1 cut(s)	119
PctI	GAATGC	1 cut(s)	340
PfeI	GAWTC	1 cut(s)	373
PkrI	GCNGC	1 cut(s)	562
PsiI	TTATAA	1 cut(s)	521
Psp6I	CCWGG	1 cut(s)	304
PspGI	CCWGG	1 cut(s)	304
PspN4I	GGNNCC	1 cut(s)	202
PspPI	GGNCC	2 cut(s)	541, 635
PstNI	CAGNNNCTG	2 cut(s)	506, 755
PsuI	RGATCY	1 cut(s)	110
RsaI	GTAC	1 cut(s)	275
RsaNI	GTAC	1 cut(s)	274
RseI	CAYNNNNRTG	1 cut(s)	383
SaqAI	TTAA	3 cut(s)	227, 431, 582
SatI	GCNGC	1 cut(s)	561
Sau3AI	GATC	7 cut(s)	110, 308, 391, 412, 508, 603, 652
Sau96I	GGNCC	2 cut(s)	541, 635
ScrFI	CCNGG	1 cut(s)	306
SetI	ASST	5 cut(s)	133, 202, 355, 589, 766
SfaNI	GCATC	2 cut(s)	165, 229
SfcI	CTRYAG	1 cut(s)	106
SmiMI	CAYNNNNRTG	1 cut(s)	383
SphI	GCATGC	1 cut(s)	29
Sse9I	AATT	6 cut(s)	333, 474, 535, 657, 664, 675
SspI	AATATT	2 cut(s)	649, 724
SspMI	CTAG	1 cut(s)	779
StyD4I	CCNGG	1 cut(s)	304
StyI	CCWWGG	2 cut(s)	440, 544
TaaI	ACNGT	1 cut(s)	146
TaqI	TCGA	2 cut(s)	171, 331
TasI	AATT	6 cut(s)	333, 474, 535, 657, 664, 675
TatI	WGTACW	1 cut(s)	273
TfiI	GAWTC	1 cut(s)	373
Tru1I	TTAA	3 cut(s)	227, 431, 582
Tru9I	TTAA	3 cut(s)	227, 431, 582
TscAI	CASTG	1 cut(s)	266
TseFI	GTSAC	1 cut(s)	640
TseI	GCWGC	1 cut(s)	560
Tsp45I	GTSAC	1 cut(s)	640
TspDTI	ATGAA	3 cut(s)	380, 734, 752
TspGWI	ACGGA	1 cut(s)	251
TspRI	CASTG	1 cut(s)	266
XapI	RAATTY	2 cut(s)	333, 664
XceI	RCATGY	2 cut(s)	29, 304
XspI	CTAG	1 cut(s)	779

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