Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr4D

Orthogroup ID

OG0007897

Physical Location & Seq

Genomic Coordinates Forward (+)

45573978 .. 45576158

Gene Structure 2181 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh4DG244200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1032 bp

ATGATGGTTGAGGAATCTGAGGTTCCAAAGCAGACTTGCAATAGTTTGGAGAATACAAAGTCACTAGATTCTGACCTGAACACACAGAACATAGGTGGAATTCTATCCACACCTCCCGTTAGGAACCTTGCAAAGAAATATGGTATCGATATCAATGAAGTCCATGGAACTGGTGACGATGGGAGAGTATTGAAAGAAGATGTCCTTAAGTTTGCTTTGCAGAAGGGAATTATTGAAGATTCATCTGCCTCTTCGACTTCTAGTTCTGTTGAATTTTCCAGATTAGAAGAGAGTTACTCGCATCAATCAGCTAAAGCTGGGTGGATATGTGAAGATAAGACAGTTACCTTGAGGGGCTTCCAGCGCGCAATGGTCAAATCAATGACTATGGCTGCAAAAGTTCCACATTTTCATTTTGTTGAGGAGATAAATTGCAATGCACTTGGAAAGCTAAAAGAGTCTTTCCAAAGGAGCAACTCTGATTCAAGTGTTAAGCACACCTTCCTTCCATCATTGATAAAGACACTTTCAATGGCCATAAGCAAATATCCATTAGTGAACAGTTGTTTCACTGAGGAGTCACTTGAGGTCATCCTAAAAGGTTCCCACAACATCGGAATTGCCATGGATACTCCATATGGTCTAGTTGTGCCAAACATAAAGAATGTTCAGTCTCTTTCCATATTGGAGATAACAAAGGAACTTTCACGGTTACTACAATTGGCATTGGAAAACAAGCTTAGGCCTGAAGATATATCTGGAGGAACAATTACTCTAAGTAATATTGGGGCTATTGGTGGGAAGTATGGTTCCCCTCTTCTCAACTTGCCAGAGGTTGCCATTATTGCAATTGGACGAATTCAGAAGGTTCCACAATATGCAGATGATGGAAGTGTATATCCTGCATCAGTTATGACGGTTAATATAGGCGCAGATCATAGAGTGCTGGACGGAGCAACTGTTGCCCGATTCTGTAAAGAGTGGAAACAATTAATAGAGAATCCAGAGCTGCTCATGTTGCACATGACATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004147 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0005759 GO:0005947 GO:0006950 GO:0007154 GO:0008150 GO:0008270 GO:0009267 GO:0009295 GO:0009314 GO:0009416 GO:0009605 GO:0009628 GO:0009642 GO:0009646 GO:0009743 GO:0009744 GO:0009987 GO:0009991 GO:0010033 GO:0016407 GO:0016417 GO:0016740 GO:0016746 GO:0016747 GO:0019899 GO:0030062 GO:0030523 GO:0031625 GO:0031667 GO:0031668 GO:0031669 GO:0031974 GO:0032991 GO:0033554 GO:0034285 GO:0042221 GO:0042594 GO:0042645 GO:0043167 GO:0043169 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043233 GO:0043617 GO:0044389 GO:0044422 GO:0044424 GO:0044429 GO:0044444 GO:0044446 GO:0044464 GO:0045239 GO:0045240 GO:0046872 GO:0046914 GO:0050896 GO:0051716 GO:0070013 GO:0071496 GO:0098798 GO:1901700 GO:1902494 GO:1990204

KEGG Pathways

Metabolic & Signaling

ko00280 ko00640 ko01100 ko01110 ko01130 map00280 map00640 map01100 map01110 map01130

Pfam Domains

Protein Families

2-oxoacid_dh Biotin_lipoyl E3_binding

Protein Analysis

343

Amino Acids

37.54

Weight (kDa)

5.95

Isoelectric Point (pI)

49.43

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
E3_binding	PF02817	34 - 69	1e-13	e3 binding domain
2-oxoacid_dh	PF00198	112 - 340	4.2e-79	2-oxoacid dehydrogenases acyltransferase (catalytic domain)

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

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Align Labels (Cladogram)

Image

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Publication-ready

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Orthologous Genes (Group: OG0007897)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G06850 AT3G06850
fragaria_vesca	FvH4_4g18561 FvH4_4g18561 FvH4_4g18561
malus_domestica	MD13G1165700.v1.1
prunus_persica	Prupe.1G132500_v2.0.a1
pyrus_communis	pycom13g14180 pycom16g14020
rosa_chinensis	RchiOBHm_Chr4g0423151
rosa_multiflora	Rmu_sc0000744.1_g000002 Rmu_sc0000744.1_g000004 Rmu_sc0008829.1_g000001 Rmu_sc0027756.1_g000002
rosa_roxburghii	Rroxscaffold_5G00365320
rosa_rugosa	Rorug04G0184700 Rorug04G0184800 Rorug04G0184800
rosa_samantha	Rh4AG244200 Rh4BG249400 Rh4CG258500 Rh4DG244100 Rh4DG244200
rosa_wichuraiana	Rw4G021040

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	366
AcoI	YGGCCR	1 cut(s)	534
AcsI	RAATTY	3 cut(s)	99, 272, 858
AcuI	CTGAAG	1 cut(s)	768
AflII	CTTAAG	1 cut(s)	206
AgsI	TTSAA	5 cut(s)	193, 236, 272, 486, 531
AloI	GAACNNNNNNTCC	2 cut(s)	793, 825
AluBI	AGCT	5 cut(s)	311, 317, 451, 739, 1009
AluI	AGCT	5 cut(s)	311, 317, 451, 739, 1009
Alw26I	GTCTC	1 cut(s)	678
AoxI	GGCC	2 cut(s)	534, 743
ApeKI	GCWGC	2 cut(s)	392, 1009
ApoI	RAATTY	3 cut(s)	99, 272, 858
AseI	ATTAAT	1 cut(s)	992
AspLEI	GCGC	3 cut(s)	366, 368, 932
AsuHPI	GGTGA	1 cut(s)	185
BalI	TGGCCA	1 cut(s)	536
BbvI	GCAGC	2 cut(s)	379, 996
BccI	CCATC	3 cut(s)	173, 517, 881
BciVI	GTATCC	1 cut(s)	622
BcoDI	GTCTC	1 cut(s)	678
BfaI	CTAG	3 cut(s)	65, 261, 644
BfrI	CTTAAG	1 cut(s)	206
BfuI	GTATCC	1 cut(s)	622
BisI	GCNGC	2 cut(s)	393, 1010
BlsI	GCNGC	2 cut(s)	394, 1011
BmiI	GGNNCC	5 cut(s)	24, 125, 604, 811, 870
BmsI	GCATC	2 cut(s)	310, 914
BplI	GAGNNNNNCTC	2 cut(s)	281, 313
BpmI	CTGGAG	1 cut(s)	780
Bpu10I	CCTNAGC	1 cut(s)	740
BpuEI	CTTGAG	2 cut(s)	370, 605
Bsa29I	ATCGAT	1 cut(s)	147
BsaJI	CCNNGG	2 cut(s)	163, 624
BsaXI	ACNNNNNCTCC	2 cut(s)	945, 975
Bse1I	ACTGG	1 cut(s)	175
Bse3DI	GCAATG	2 cut(s)	375, 442
BseCI	ATCGAT	1 cut(s)	147
BseDI	CCNNGG	2 cut(s)	163, 624
BseGI	GGATG	1 cut(s)	591
BseMI	GCAATG	2 cut(s)	375, 442
BseMII	CTCAG	2 cut(s)	9, 564
BseNI	ACTGG	1 cut(s)	175
BsePI	GCGCGC	1 cut(s)	364
BseRI	GAGGAG	2 cut(s)	437, 590
BseXI	GCAGC	2 cut(s)	379, 996
BseYI	CCCAGC	1 cut(s)	317
Bsh1236I	CGCG	1 cut(s)	366
BshFI	GGCC	2 cut(s)	536, 745
BshVI	ATCGAT	1 cut(s)	147
BsmAI	GTCTC	1 cut(s)	678
BsnI	GGCC	2 cut(s)	536, 745
Bsp143I	GATC	1 cut(s)	934
Bsp19I	CCATGG	2 cut(s)	163, 624
BspANI	GGCC	2 cut(s)	536, 745
BspCNI	CTCAG	2 cut(s)	10, 565
BspDI	ATCGAT	1 cut(s)	147
BspFNI	CGCG	1 cut(s)	366
BspLI	GGNNCC	5 cut(s)	24, 125, 604, 811, 870
BspTI	CTTAAG	1 cut(s)	206
BsrDI	GCAATG	2 cut(s)	375, 442
BsrI	ACTGG	1 cut(s)	175
BssECI	CCNNGG	2 cut(s)	163, 624
BssHII	GCGCGC	1 cut(s)	364
BssMI	GATC	1 cut(s)	934
BssT1I	CCWWGG	2 cut(s)	163, 624
Bst4CI	ACNGT	5 cut(s)	343, 563, 711, 919, 961
Bst6I	CTCTTC	3 cut(s)	256, 282, 822
BstAFI	CTTAAG	1 cut(s)	206
BstAPI	GCANNNNNTGC	1 cut(s)	962
BstC8I	GCNNGC	1 cut(s)	366
BstDEI	CTNAG	4 cut(s)	18, 573, 740, 776
BstDSI	CCRYGG	2 cut(s)	163, 624
BstF5I	GGATG	1 cut(s)	591
BstFNI	CGCG	1 cut(s)	366
BstHHI	GCGC	3 cut(s)	366, 368, 932
BstKTI	GATC	1 cut(s)	937
BstMAI	GTCTC	1 cut(s)	678
BstMBI	GATC	1 cut(s)	934
BstMWI	GCNNNNNNNGC	4 cut(s)	363, 845, 962, 1018
BstUI	CGCG	1 cut(s)	366
BstV1I	GCAGC	2 cut(s)	379, 996
BstXI	CCANNNNNNTGG	1 cut(s)	170
Bsu15I	ATCGAT	1 cut(s)	147
BsuI	GTATCC	1 cut(s)	622
BsuRI	GGCC	2 cut(s)	536, 745
BsuTUI	ATCGAT	1 cut(s)	147
BtgI	CCRYGG	2 cut(s)	163, 624
BtsCI	GGATG	1 cut(s)	591
BtsIMutI	CAGTG	1 cut(s)	570
Cac8I	GCNNGC	1 cut(s)	366
CfoI	GCGC	3 cut(s)	366, 368, 932
ClaI	ATCGAT	1 cut(s)	147
CviAII	CATG	4 cut(s)	164, 625, 1015, 1024
DdeI	CTNAG	4 cut(s)	18, 573, 740, 776
DpnI	GATC	1 cut(s)	936
DpnII	GATC	1 cut(s)	934
EaeI	YGGCCR	1 cut(s)	534
Eam1104I	CTCTTC	3 cut(s)	256, 282, 822
EarI	CTCTTC	3 cut(s)	256, 282, 822
Eco130I	CCWWGG	2 cut(s)	163, 624
Eco147I	AGGCCT	1 cut(s)	745
Eco32I	GATATC	1 cut(s)	151
Eco57I	CTGAAG	1 cut(s)	768
EcoRI	GAATTC	2 cut(s)	99, 858
EcoRV	GATATC	1 cut(s)	151
EcoT14I	CCWWGG	2 cut(s)	163, 624
ErhI	CCWWGG	2 cut(s)	163, 624
FaeI	CATG	4 cut(s)	167, 628, 1018, 1027
FalI	AAGNNNNNCTT	4 cut(s)	189, 221, 485, 517
FatI	CATG	4 cut(s)	163, 624, 1014, 1023
FauNDI	CATATG	1 cut(s)	637
Fnu4HI	GCNGC	2 cut(s)	393, 1010
FokI	GGATG	1 cut(s)	578
Fsp4HI	GCNGC	2 cut(s)	393, 1010
FspBI	CTAG	3 cut(s)	65, 261, 644
GlaI	GCGC	3 cut(s)	365, 367, 931
GluI	GCNGC	2 cut(s)	393, 1010
GsaI	CCCAGC	1 cut(s)	321
GsuI	CTGGAG	1 cut(s)	780
HaeIII	GGCC	2 cut(s)	536, 745
HhaI	GCGC	3 cut(s)	366, 368, 932
Hin1II	CATG	4 cut(s)	167, 628, 1018, 1027
Hin6I	GCGC	3 cut(s)	364, 366, 930
HinP1I	GCGC	3 cut(s)	364, 366, 930
HindIII	AAGCTT	1 cut(s)	737
HinfI	GANTC	8 cut(s)	14, 68, 239, 458, 482, 578, 969, 1000
HphI	GGTGA	1 cut(s)	185
Hpy166II	GTNNAC	1 cut(s)	559
Hpy188I	TCNGA	5 cut(s)	19, 73, 481, 617, 864
Hpy188III	TCNNGA	3 cut(s)	279, 759, 1004
Hpy8I	GTNNAC	1 cut(s)	559
HpyAV	CCTTC	4 cut(s)	217, 511, 515, 859
HpyCH4III	ACNGT	5 cut(s)	343, 563, 711, 919, 961
HpyF10VI	GCNNNNNNNGC	4 cut(s)	363, 845, 962, 1018
HpyF3I	CTNAG	4 cut(s)	18, 573, 740, 776
Hsp92II	CATG	4 cut(s)	167, 628, 1018, 1027
HspAI	GCGC	3 cut(s)	364, 366, 930
Kzo9I	GATC	1 cut(s)	934
LmnI	GCTCC	2 cut(s)	471, 953
Lsp1109I	GCAGC	2 cut(s)	379, 996
LweI	GCATC	2 cut(s)	310, 914
MaeI	CTAG	3 cut(s)	65, 261, 644
MaeIII	GTNAC	6 cut(s)	60, 173, 293, 343, 579, 711
MalI	GATC	1 cut(s)	936
MboI	GATC	1 cut(s)	934
MboII	GAAGA	7 cut(s)	209, 243, 248, 299, 344, 761, 809
MfeI	CAATTG	2 cut(s)	719, 849
MlsI	TGGCCA	1 cut(s)	536
MluNI	TGGCCA	1 cut(s)	536
MlyI	GAGTC	2 cut(s)	467, 587
Mox20I	TGGCCA	1 cut(s)	536
MscI	TGGCCA	1 cut(s)	536
MseI	TTAA	4 cut(s)	207, 492, 921, 992
Msp20I	TGGCCA	1 cut(s)	536
MspCI	CTTAAG	1 cut(s)	206
MunI	CAATTG	2 cut(s)	719, 849
MvnI	CGCG	1 cut(s)	366
MwoI	GCNNNNNNNGC	4 cut(s)	363, 845, 962, 1018
NcoI	CCATGG	2 cut(s)	163, 624
NdeI	CATATG	1 cut(s)	637
NdeII	GATC	1 cut(s)	934
NlaIII	CATG	4 cut(s)	167, 628, 1018, 1027
NlaIV	GGNNCC	5 cut(s)	24, 125, 604, 811, 870
NmuCI	GTSAC	3 cut(s)	60, 173, 579
PauI	GCGCGC	1 cut(s)	364
PceI	AGGCCT	1 cut(s)	745
PfeI	GAWTC	6 cut(s)	14, 68, 239, 482, 969, 1000
PkrI	GCNGC	2 cut(s)	394, 1011
PleI	GAGTC	2 cut(s)	466, 586
PpsI	GAGTC	2 cut(s)	466, 586
PshBI	ATTAAT	1 cut(s)	992
PspFI	CCCAGC	1 cut(s)	317
PspN4I	GGNNCC	5 cut(s)	24, 125, 604, 811, 870
PteI	GCGCGC	1 cut(s)	364
SaqAI	TTAA	4 cut(s)	207, 492, 921, 992
SatI	GCNGC	2 cut(s)	393, 1010
Sau3AI	GATC	1 cut(s)	934
SchI	GAGTC	2 cut(s)	467, 587
SfaNI	GCATC	2 cut(s)	310, 914
SmlI	CTYRAG	3 cut(s)	206, 349, 584
SmoI	CTYRAG	3 cut(s)	206, 349, 584
SseBI	AGGCCT	1 cut(s)	745
SspI	AATATT	1 cut(s)	784
SspMI	CTAG	3 cut(s)	65, 261, 644
StuI	AGGCCT	1 cut(s)	745
StyI	CCWWGG	2 cut(s)	163, 624
TaaI	ACNGT	5 cut(s)	343, 563, 711, 919, 961
TaqI	TCGA	2 cut(s)	147, 254
TfiI	GAWTC	6 cut(s)	14, 68, 239, 482, 969, 1000
Tru1I	TTAA	4 cut(s)	207, 492, 921, 992
Tru9I	TTAA	4 cut(s)	207, 492, 921, 992
TscAI	CASTG	1 cut(s)	577
TseFI	GTSAC	3 cut(s)	60, 173, 579
TseI	GCWGC	2 cut(s)	392, 1009
Tsp45I	GTSAC	3 cut(s)	60, 173, 579
TspDTI	ATGAA	3 cut(s)	171, 231, 401
TspGWI	ACGGA	1 cut(s)	966
TspRI	CASTG	1 cut(s)	577
Vha464I	CTTAAG	1 cut(s)	206
VspI	ATTAAT	1 cut(s)	992
XapI	RAATTY	3 cut(s)	99, 272, 858
XspI	CTAG	3 cut(s)	65, 261, 644

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