Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3D

Orthogroup ID

OG0005226

Physical Location & Seq

Genomic Coordinates Forward (+)

35395392 .. 35398658

Gene Structure 3267 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3DG324200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1044 bp

ATGGCGTTCGAGAAGATCAAGGTCGCTAACCCCATCGTCGAGATGGACGATGAAGCTCGCATGAAGGAGTTTAGCTTGAAGCAAATGTGGAGGAGTCCCAATGGGACTATTAGGAATATTTTGAATGGTACTGTTTTCAGAGAACCGATTCTTTGCAAGAACATTCCTCGCCTAATCCCAGGTTGGACGAAGCCAATATGCATTGGAAGACATGCTTTCGGTGATCAATATCGAGCAACTGATACAGTTATCAAAGGACCTGGGAAACTGAAATTGCTGTTTGTTCCAGAAGGAAAGGATGAGAAGACTGAACTGGAAGTGTACAACTTTACAGGGGAAGGCGGAGTAGCAATTGCCATGTACAACACCGATGAGTCAATCCGTGCTTTTGCAGAAGCTTCTATGAACACAGCTTATGAGAAAAAGTGGCCTCTTTATCTTAGCACAAAAAACACTATTCTTAAGAAGTATGACGGAAGATTCAAGGACATATTTCAGGAAGTTTACGAAGCTCATTGGAAATCCAAGTATGAAGCTGCTGGCATATGGTATGAACATCGTCTCATTGATGATATGGTGGCTTATGCACTTAAAAGTGAAGGTGGTTATGTTTGGGCATGCAAGAATTATGATGGAGATGTGCAAAGTGATTTCTTAGCTCAAGGTTTTGGATCTCTTGGATTGATGACATCAGTACTGGTGTGCCCAGATGGAAAGACCATAGAAGCTGAAGCTGCTCATGGTACAGTTACTCGGCATTATAGAGTTCACCAGAAAGGTGGTGAAACCAGCACAAACAGCATAGCTTCAATTTTTGCTTGGACGAGAGGGCTTGCACACAGGGCAAAGTTGGATGACAATGCTAAATTGTTGGATTTCACTCAGAAGCTGGAAGAAGCTTGTATTGGAACTGTGGAATCTGGGAAAATGACCAAGGATCTTGCACTAATTCTTCATGGACCTAAGCTTGCTAGGAACCACTACTTGAACACAGAGGAGTTCATTGATGCCGTGGCTGCAGAACTGAAAGCAAAGCTTTCTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004448 GO:0004450 GO:0005488 GO:0005507 GO:0005575 GO:0005576 GO:0005622 GO:0005623 GO:0005737 GO:0005829 GO:0005886 GO:0005911 GO:0006082 GO:0006102 GO:0006139 GO:0006725 GO:0006732 GO:0006733 GO:0006739 GO:0006753 GO:0006793 GO:0006796 GO:0006807 GO:0006950 GO:0006952 GO:0006970 GO:0008150 GO:0008152 GO:0009117 GO:0009506 GO:0009507 GO:0009532 GO:0009536 GO:0009570 GO:0009605 GO:0009607 GO:0009617 GO:0009628 GO:0009651 GO:0009987 GO:0010035 GO:0010038 GO:0010043 GO:0016020 GO:0016491 GO:0016614 GO:0016616 GO:0019362 GO:0019637 GO:0019752 GO:0030054 GO:0034641 GO:0042221 GO:0042742 GO:0043167 GO:0043169 GO:0043207 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043436 GO:0044237 GO:0044238 GO:0044281 GO:0044422 GO:0044424 GO:0044434 GO:0044435 GO:0044444 GO:0044446 GO:0044464 GO:0046483 GO:0046496 GO:0046686 GO:0046872 GO:0046914 GO:0048046 GO:0050896 GO:0051186 GO:0051704 GO:0051707 GO:0055044 GO:0055086 GO:0055114 GO:0071704 GO:0071944 GO:0072350 GO:0072524 GO:0098542 GO:1901360 GO:1901564

KEGG Pathways

Metabolic & Signaling

ko00020 ko00480 ko00720 ko01100 ko01110 ko01120 ko01130 ko01200 ko01210 ko01230 ko04146 map00020 map00480 map00720 map01100 map01110 map01120 map01130 map01200 map01210 map01230 map04146

Pfam Domains

Protein Families

Iso_dh

Protein Analysis

347

Amino Acids

39.02

Weight (kDa)

7.12

Isoelectric Point (pI)

21.19

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Iso_dh	PF00180	11 - 338	1.7e-66	Isocitrate/isopropylmalate dehydrogenase

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

Tree File

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Publication-ready

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Orthologous Genes (Group: OG0005226)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G65930
fragaria_vesca	FvH4_1g27490 FvH4_1g27490 FvH4_1g30530 FvH4_1g30530
malus_domestica	MD09G1276900.v1.1 MD09G1277300.v1.1 MD17G1270700.v1.1
prunus_persica	Prupe.3G015500_v2.0.a1 Prupe.3G015500_v2.0.a1 Prupe.3G015500_v2.0.a1 Prupe.3G015500_v2.0.a1
pyrus_communis	pycom09g18670 pycom17g26910
rosa_chinensis	RchiOBHm_Chr3g0489041 RchiOBHm_Chr3g0489051
rosa_laevigata	RLG00000022897 RLG00000022898
rosa_multiflora	Rmu_sc0002227.1_g000003 Rmu_sc0011911.1_g000008
rosa_roxburghii	Rroxscaffold_6G00393730
rosa_rugosa	Rorug03G0242800 Rorug03G0242900 Rorug03G0242900
rosa_samantha	Rh3AG291100 Rh3BG327800 Rh3DG324200
rosa_wichuraiana	Rw3G025760 Rw3G025770

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	1 cut(s)	342
AclWI	GGATC	2 cut(s)	679, 945
AcuI	CTGAAG	1 cut(s)	750
AfaI	GTAC	5 cut(s)	130, 323, 362, 696, 745
AflII	CTTAAG	1 cut(s)	461
AgsI	TTSAA	5 cut(s)	79, 124, 484, 810, 988
AjnI	CCWGG	2 cut(s)	178, 259
AjuI	GAANNNNNNNTTGG	2 cut(s)	888, 920
Alw26I	GTCTC	1 cut(s)	566
AlwI	GGATC	2 cut(s)	679, 945
AlwNI	CAGNNNCTG	1 cut(s)	889
AoxI	GGCC	1 cut(s)	428
ApeKI	GCWGC	3 cut(s)	536, 734, 1016
Asp700I	GAANNNNTTC	1 cut(s)	147
AspS9I	GGNCC	2 cut(s)	257, 959
AsuHPI	GGTGA	3 cut(s)	233, 761, 794
AvaII	GGWCC	2 cut(s)	257, 959
BaeGI	GKGCMC	1 cut(s)	707
BbsI	GAAGAC	2 cut(s)	214, 311
BbvI	GCAGC	3 cut(s)	523, 721, 1003
BccI	CCATC	4 cut(s)	37, 41, 626, 704
BceAI	ACGGC	1 cut(s)	995
BciT130I	CCWGG	2 cut(s)	180, 261
BclI	TGATCA	1 cut(s)	223
BcoDI	GTCTC	1 cut(s)	566
BfaI	CTAG	1 cut(s)	972
BfmI	CTRYAG	1 cut(s)	1017
BfrI	CTTAAG	1 cut(s)	461
BisI	GCNGC	3 cut(s)	537, 735, 1017
BlsI	GCNGC	3 cut(s)	538, 736, 1018
BmcAI	AGTACT	1 cut(s)	696
Bme1390I	CCNGG	2 cut(s)	180, 261
Bme18I	GGWCC	2 cut(s)	257, 959
BmgT120I	GGNCC	2 cut(s)	257, 959
BmiI	GGNNCC	1 cut(s)	977
BmrFI	CCNGG	2 cut(s)	180, 261
BmsI	GCATC	1 cut(s)	997
BpiI	GAAGAC	2 cut(s)	214, 311
Bpu10I	CCTNAGC	1 cut(s)	963
BpuEI	CTTGAG	1 cut(s)	645
BsaBI	GATNNNNATC	1 cut(s)	228
BsaJI	CCNNGG	4 cut(s)	178, 260, 933, 1011
Bse1I	ACTGG	2 cut(s)	318, 702
Bse8I	GATNNNNATC	1 cut(s)	228
BseBI	CCWGG	2 cut(s)	180, 261
BseDI	CCNNGG	4 cut(s)	178, 260, 933, 1011
BseGI	GGATG	2 cut(s)	304, 859
BseJI	GATNNNNATC	1 cut(s)	228
BseMII	CTCAG	1 cut(s)	896
BseNI	ACTGG	2 cut(s)	318, 702
BseRI	GAGGAG	2 cut(s)	106, 1010
BseSI	GKGCMC	1 cut(s)	707
BseXI	GCAGC	3 cut(s)	523, 721, 1003
BshFI	GGCC	1 cut(s)	430
BslFI	GGGAC	2 cut(s)	81, 118
BsmAI	GTCTC	1 cut(s)	566
BsmBI	CGTCTC	1 cut(s)	566
BsmFI	GGGAC	2 cut(s)	81, 118
BsnI	GGCC	1 cut(s)	430
Bsp1286I	GDGCHC	1 cut(s)	707
Bsp1407I	TGTACA	2 cut(s)	321, 360
Bsp143I	GATC	4 cut(s)	15, 223, 671, 937
BspACI	CCGC	1 cut(s)	342
BspANI	GGCC	1 cut(s)	430
BspCNI	CTCAG	1 cut(s)	895
BspLI	GGNNCC	1 cut(s)	977
BspMAI	CTGCAG	1 cut(s)	1021
BspPI	GGATC	2 cut(s)	679, 945
BspTI	CTTAAG	1 cut(s)	461
BsrGI	TGTACA	2 cut(s)	321, 360
BsrI	ACTGG	2 cut(s)	318, 702
BssECI	CCNNGG	4 cut(s)	178, 260, 933, 1011
BssMI	GATC	4 cut(s)	15, 223, 671, 937
BssT1I	CCWWGG	1 cut(s)	933
Bst2UI	CCWGG	2 cut(s)	180, 261
Bst4CI	ACNGT	4 cut(s)	133, 247, 748, 913
BstAFI	CTTAAG	1 cut(s)	461
BstAUI	TGTACA	2 cut(s)	321, 360
BstC8I	GCNNGC	5 cut(s)	58, 541, 619, 834, 969
BstDEI	CTNAG	4 cut(s)	440, 655, 882, 963
BstDSI	CCRYGG	1 cut(s)	1011
BstF5I	GGATG	2 cut(s)	304, 859
BstKTI	GATC	4 cut(s)	18, 226, 674, 940
BstMAI	GTCTC	1 cut(s)	566
BstMBI	GATC	4 cut(s)	15, 223, 671, 937
BstMWI	GCNNNNNNNGC	4 cut(s)	734, 798, 842, 1016
BstNI	CCWGG	2 cut(s)	180, 261
BstNSI	RCATGY	2 cut(s)	215, 621
BstSCI	CCNGG	2 cut(s)	178, 259
BstSFI	CTRYAG	1 cut(s)	1017
BstSLI	GKGCMC	1 cut(s)	707
BstV1I	GCAGC	3 cut(s)	523, 721, 1003
BstV2I	GAAGAC	2 cut(s)	214, 311
BstX2I	RGATCY	2 cut(s)	671, 937
BstXI	CCANNNNNNTGG	1 cut(s)	779
BstYI	RGATCY	2 cut(s)	671, 937
BsuRI	GGCC	1 cut(s)	430
BtgI	CCRYGG	1 cut(s)	1011
BtsCI	GGATG	2 cut(s)	304, 859
Cac8I	GCNNGC	5 cut(s)	58, 541, 619, 834, 969
CaiI	CAGNNNCTG	1 cut(s)	889
Cfr13I	GGNCC	2 cut(s)	257, 959
Csp6I	GTAC	5 cut(s)	129, 322, 361, 695, 744
CviAII	CATG	6 cut(s)	61, 212, 358, 618, 740, 956
CviQI	GTAC	5 cut(s)	129, 322, 361, 695, 744
DdeI	CTNAG	4 cut(s)	440, 655, 882, 963
DpnI	GATC	4 cut(s)	17, 225, 673, 939
DpnII	GATC	4 cut(s)	15, 223, 671, 937
EciI	GGCGGA	1 cut(s)	357
Eco130I	CCWWGG	1 cut(s)	933
Eco47I	GGWCC	2 cut(s)	257, 959
Eco57I	CTGAAG	1 cut(s)	750
EcoO109I	RGGNCCY	1 cut(s)	257
EcoRII	CCWGG	2 cut(s)	178, 259
EcoT14I	CCWWGG	1 cut(s)	933
EcoT22I	ATGCAT	1 cut(s)	203
ErhI	CCWWGG	1 cut(s)	933
Esp3I	CGTCTC	1 cut(s)	566
FaeI	CATG	6 cut(s)	64, 215, 361, 621, 743, 959
FalI	AAGNNNNNCTT	3 cut(s)	199, 231, 1020
FaqI	GGGAC	2 cut(s)	81, 118
FatI	CATG	6 cut(s)	60, 211, 357, 617, 739, 955
FauNDI	CATATG	1 cut(s)	545
FbaI	TGATCA	1 cut(s)	223
Fnu4HI	GCNGC	3 cut(s)	537, 735, 1017
FokI	GGATG	2 cut(s)	311, 866
Fsp4HI	GCNGC	3 cut(s)	537, 735, 1017
FspBI	CTAG	1 cut(s)	972
GluI	GCNGC	3 cut(s)	537, 735, 1017
HaeIII	GGCC	1 cut(s)	430
Hin1II	CATG	6 cut(s)	64, 215, 361, 621, 743, 959
HindIII	AAGCTT	4 cut(s)	396, 897, 965, 1034
HinfI	GANTC	5 cut(s)	94, 148, 374, 480, 917
HphI	GGTGA	3 cut(s)	233, 761, 794
Hpy166II	GTNNAC	3 cut(s)	322, 505, 769
Hpy188I	TCNGA	2 cut(s)	140, 885
Hpy188III	TCNNGA	5 cut(s)	10, 40, 287, 497, 1041
Hpy8I	GTNNAC	3 cut(s)	322, 505, 769
Hpy99I	CGWCG	1 cut(s)	41
HpyAV	CCTTC	4 cut(s)	58, 284, 332, 593
HpyCH4III	ACNGT	4 cut(s)	133, 247, 748, 913
HpyCH4V	TGCA	9 cut(s)	156, 201, 392, 587, 621, 643, 836, 944, 1019
HpyF10VI	GCNNNNNNNGC	4 cut(s)	734, 798, 842, 1016
HpyF3I	CTNAG	4 cut(s)	440, 655, 882, 963
Hsp92II	CATG	6 cut(s)	64, 215, 361, 621, 743, 959
Ksp22I	TGATCA	1 cut(s)	223
Kzo9I	GATC	4 cut(s)	15, 223, 671, 937
Lsp1109I	GCAGC	3 cut(s)	523, 721, 1003
LweI	GCATC	1 cut(s)	997
MaeI	CTAG	1 cut(s)	972
MaeIII	GTNAC	1 cut(s)	748
MalI	GATC	4 cut(s)	17, 225, 673, 939
MboI	GATC	4 cut(s)	15, 223, 671, 937
MboII	GAAGA	6 cut(s)	25, 219, 316, 489, 905, 944
MfeI	CAATTG	1 cut(s)	351
MflI	RGATCY	2 cut(s)	671, 937
MhlI	GDGCHC	1 cut(s)	707
MluCI	AATT	6 cut(s)	272, 351, 625, 810, 866, 948
MlyI	GAGTC	2 cut(s)	103, 383
MmeI	TCCRAC	3 cut(s)	164, 831, 852
MnlI	CCTC	5 cut(s)	84, 177, 441, 821, 988
Mph1103I	ATGCAT	1 cut(s)	203
MroXI	GAANNNNTTC	1 cut(s)	147
MseI	TTAA	2 cut(s)	462, 591
MspCI	CTTAAG	1 cut(s)	461
MspR9I	CCNGG	2 cut(s)	180, 261
MunI	CAATTG	1 cut(s)	351
MvaI	CCWGG	2 cut(s)	180, 261
MwoI	GCNNNNNNNGC	4 cut(s)	734, 798, 842, 1016
NdeI	CATATG	1 cut(s)	545
NdeII	GATC	4 cut(s)	15, 223, 671, 937
NlaIII	CATG	6 cut(s)	64, 215, 361, 621, 743, 959
NlaIV	GGNNCC	1 cut(s)	977
NmeAIII	GCCGAG	1 cut(s)	733
NsiI	ATGCAT	1 cut(s)	203
NspI	RCATGY	2 cut(s)	215, 621
PaeI	GCATGC	1 cut(s)	621
PcsI	WCGNNNNNNNCGW	1 cut(s)	45
PdmI	GAANNNNTTC	1 cut(s)	147
PfeI	GAWTC	3 cut(s)	148, 480, 917
PkrI	GCNGC	3 cut(s)	538, 736, 1018
PleI	GAGTC	2 cut(s)	102, 382
PpsI	GAGTC	2 cut(s)	102, 382
PpuMI	RGGWCCY	1 cut(s)	257
Psp5II	RGGWCCY	1 cut(s)	257
Psp6I	CCWGG	2 cut(s)	178, 259
PspGI	CCWGG	2 cut(s)	178, 259
PspN4I	GGNNCC	1 cut(s)	977
PspPI	GGNCC	2 cut(s)	257, 959
PspPPI	RGGWCCY	1 cut(s)	257
PstI	CTGCAG	1 cut(s)	1021
PstNI	CAGNNNCTG	1 cut(s)	889
PsuI	RGATCY	2 cut(s)	671, 937
RsaI	GTAC	5 cut(s)	130, 323, 362, 696, 745
RsaNI	GTAC	5 cut(s)	129, 322, 361, 695, 744
SaqAI	TTAA	2 cut(s)	462, 591
SatI	GCNGC	3 cut(s)	537, 735, 1017
Sau3AI	GATC	4 cut(s)	15, 223, 671, 937
Sau96I	GGNCC	2 cut(s)	257, 959
ScaI	AGTACT	1 cut(s)	696
SchI	GAGTC	2 cut(s)	103, 383
ScrFI	CCNGG	2 cut(s)	180, 261
SduI	GDGCHC	1 cut(s)	707
SfaNI	GCATC	1 cut(s)	997
SfcI	CTRYAG	1 cut(s)	1017
SinI	GGWCC	2 cut(s)	257, 959
SmlI	CTYRAG	2 cut(s)	461, 660
SmoI	CTYRAG	2 cut(s)	461, 660
SphI	GCATGC	1 cut(s)	621
Sse9I	AATT	6 cut(s)	272, 351, 625, 810, 866, 948
SsiI	CCGC	1 cut(s)	342
SspI	AATATT	1 cut(s)	118
SspMI	CTAG	1 cut(s)	972
StyD4I	CCNGG	2 cut(s)	178, 259
StyI	CCWWGG	1 cut(s)	933
TaaI	ACNGT	4 cut(s)	133, 247, 748, 913
TaqI	TCGA	3 cut(s)	9, 39, 232
TasI	AATT	6 cut(s)	272, 351, 625, 810, 866, 948
TatI	WGTACW	3 cut(s)	321, 360, 694
TfiI	GAWTC	3 cut(s)	148, 480, 917
Tru1I	TTAA	2 cut(s)	462, 591
Tru9I	TTAA	2 cut(s)	462, 591
TseI	GCWGC	3 cut(s)	536, 734, 1016
TspDTI	ATGAA	7 cut(s)	66, 77, 419, 546, 567, 944, 991
TspGWI	ACGGA	2 cut(s)	371, 489
Vha464I	CTTAAG	1 cut(s)	461
VpaK11BI	GGWCC	2 cut(s)	257, 959
XceI	RCATGY	2 cut(s)	215, 621
XcmI	CCANNNNNNNNNTGG	1 cut(s)	40
XmnI	GAANNNNTTC	1 cut(s)	147
XspI	CTAG	1 cut(s)	972
ZrmI	AGTACT	1 cut(s)	696
Zsp2I	ATGCAT	1 cut(s)	203

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