Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3C

Orthogroup ID

OG0001254

Physical Location & Seq

Genomic Coordinates Forward (+)

35269377 .. 35276091

Gene Structure 6715 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3CG325200.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1095 bp

ATGGCGTTCGAGAAGATCAAGGTCGCTAACCCCATCGTCGAGATGGACGGAGATGAGATGACTCGAATTTTCTGGAAATCAATCAAGGATAAGCTTATTCTCCCCTTTTTGGATTTGGACATTAAGTACTTTGACCTTGGTCTTCCTCACCGTGATGCCACTGATGATAAAGTTACCGTTGAAAGTGCAGAGGCTACTCTCAAGTACAATGTAGCAATCAAATGCGCGACTATCACACCAGATGAAGCTCGCATGAAGGAGTTTAGCTTGAAGCAAATGTGGAGGAGTCCCAATGGGACTATTAGGAATATTTTGAATGGTACTGTTTTCAGAGAGCCGATTCTTTGCAAGAACATTCCTTGCCTAATCCCAGGTTGGACGAAGCCAATATGCATTGGAAGACATGCTTTCGGTGATCAATATCGAGCAACTGATACAGTTATCAAAGGACCTGGGAAACTGAAATTGCTGTTTGTTCCAGAAGGAAAGGATGAGAAGACTGAACTGGAAGTGTACAATTTTACAGGGGAAGGCGGAGTAGCAATTGCCATGTACAACACCGATGAGTCAATCCGTGCTTTTGCAGAAGCTTCTATGAACACAGCTTATGAGAAAAAGTGGCCTCTTTATCTTAGCACAAAAAACACTATTCTTAAGAAGTATGACGGAAGATTCAAGGACATATTTCAGGAAGTTTACGAAGCTCATTGGAAATCCAAGTATGAAGCTGCTGGCATATGGTATGAACATCGTCTCATTGATGATATGGTGGCTTATGCACTTAAAAGTGAAGGTGGTTATGTTTGGGCATGCAAGAATTATGATGGAGATGTGCAAAGTGATTTCTTAGCTCAAGGTTTGTATGACAGACTACTAGCAATCTTTTGTTGCACTACCTCTATCATCATATTTGACATACAGATGGTTATAGTTTCTAACTTCTGGTTGCATTATAGGTTTTGGATCTCTTGGATTGATGACATCAGTACTGGTATGCTAGACCTGATTTGGGTGTTTACTTTCTCTTTCTTATCCACCCTTCCTTCCATCAATACATTCTTTTTGTTGTATAAATTCTTTTTCTTCACTTACTAG

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

364

Amino Acids

42.2

Weight (kDa)

5.69

Isoelectric Point (pI)

20.69

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Iso_dh	PF00180	7 - 285	1.9e-53	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: OG0001254)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G54340 AT1G54340
fragaria_vesca	FvH4_3g13770 FvH4_3g13770 FvH4_3g13770 FvH4_3g13770 FvH4_3g13770 FvH4_3g13770 FvH4_3g13770
malus_domestica	MD05G1241100.v1.1 MD10G1219500.v1.1
prunus_persica	Prupe.4G124500_v2.0.a1 Prupe.4G124500_v2.0.a1
pyrus_communis	pycom05g21730 pycom10g18520
rosa_chinensis	RchiOBHm_Chr1g0322671 RchiOBHm_Chr1g0349881 RchiOBHm_Chr3g0487801 RchiOBHm_Chr3g0492471 RchiOBHm_Chr3g0496261 RchiOBHm_Chr3g0496271 RchiOBHm_Chr5g0022951 RchiOBHm_Chr5g0057661
rosa_laevigata	RLG00000017604 RLG00000018107 RLG00000019194 RLG00000032684
rosa_multiflora	Rmu_co8372099.1_g000001 Rmu_sc0000303.1_g000020 Rmu_sc0002263.1_g000012 Rmu_sc0002675.1_g000002 Rmu_sc0012663.1_g000003
rosa_roxburghii	Rroxscaffold_1G00056380
rosa_rugosa	Rorug05G0075800 Rorug05G0075900
rosa_samantha	Rh1BG010100 Rh1CG086100 Rh1DG139600 Rh2AG460100 Rh2BG230500 Rh2DG286700 Rh3AG284700 Rh3AG304200 Rh3AG328100 Rh3CG325200 Rh3DG354500 Rh4AG076600 Rh4CG081500 Rh5AG162200 Rh5BG161400 Rh5CG176100 Rh5CG412000 Rh5DG162800 Rh6BG196700
rosa_wichuraiana	Rw5G014600

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	227
AciI	CCGC	1 cut(s)	534
AclWI	GGATC	1 cut(s)	971
AcsI	RAATTY	2 cut(s)	66, 1073
AfaI	GTAC	6 cut(s)	128, 206, 322, 515, 554, 988
AfiI	CCNNNNNNNGG	2 cut(s)	109, 1009
AflII	CTTAAG	1 cut(s)	653
AgsI	TTSAA	4 cut(s)	182, 271, 316, 676
AjnI	CCWGG	2 cut(s)	370, 451
AluBI	AGCT	8 cut(s)	94, 248, 267, 590, 605, 704, 728, 851
AluI	AGCT	8 cut(s)	94, 248, 267, 590, 605, 704, 728, 851
Alw26I	GTCTC	1 cut(s)	758
AlwI	GGATC	1 cut(s)	971
AoxI	GGCC	1 cut(s)	620
ApeKI	GCWGC	1 cut(s)	728
ApoI	RAATTY	2 cut(s)	66, 1073
AspLEI	GCGC	1 cut(s)	227
AspS9I	GGNCC	1 cut(s)	449
AsuHPI	GGTGA	2 cut(s)	140, 425
AvaII	GGWCC	1 cut(s)	449
BbsI	GAAGAC	3 cut(s)	134, 406, 503
BbvI	GCAGC	1 cut(s)	715
BccI	CCATC	5 cut(s)	37, 41, 818, 916, 1055
BciT130I	CCWGG	2 cut(s)	372, 453
BclI	TGATCA	1 cut(s)	415
BcoDI	GTCTC	1 cut(s)	758
BfaI	CTAG	3 cut(s)	875, 998, 1093
BfrI	CTTAAG	1 cut(s)	653
BisI	GCNGC	1 cut(s)	729
BlsI	GCNGC	1 cut(s)	730
BmcAI	AGTACT	2 cut(s)	128, 988
Bme1390I	CCNGG	2 cut(s)	372, 453
Bme18I	GGWCC	1 cut(s)	449
BmgT120I	GGNCC	1 cut(s)	449
BmrFI	CCNGG	2 cut(s)	372, 453
BmsI	GCATC	1 cut(s)	145
BoxI	GACNNNNGTC	1 cut(s)	138
BpiI	GAAGAC	3 cut(s)	134, 406, 503
BpuEI	CTTGAG	2 cut(s)	185, 837
BsaBI	GATNNNNATC	1 cut(s)	420
BsaJI	CCNNGG	3 cut(s)	136, 370, 452
Bsc4I	CCNNNNNNNGG	2 cut(s)	109, 1009
Bse1I	ACTGG	2 cut(s)	510, 994
Bse8I	GATNNNNATC	1 cut(s)	420
BseBI	CCWGG	2 cut(s)	372, 453
BseDI	CCNNGG	3 cut(s)	136, 370, 452
BseGI	GGATG	1 cut(s)	496
BseJI	GATNNNNATC	1 cut(s)	420
BseLI	CCNNNNNNNGG	2 cut(s)	109, 1009
BseNI	ACTGG	2 cut(s)	510, 994
BseRI	GAGGAG	1 cut(s)	298
BseXI	GCAGC	1 cut(s)	715
BsgI	GTGCAG	1 cut(s)	207
Bsh1236I	CGCG	1 cut(s)	227
BshFI	GGCC	1 cut(s)	622
BslFI	GGGAC	2 cut(s)	273, 310
BslI	CCNNNNNNNGG	2 cut(s)	109, 1009
BsmAI	GTCTC	1 cut(s)	758
BsmBI	CGTCTC	1 cut(s)	758
BsmFI	GGGAC	2 cut(s)	273, 310
BsnI	GGCC	1 cut(s)	622
Bsp1407I	TGTACA	2 cut(s)	513, 552
Bsp143I	GATC	3 cut(s)	15, 415, 963
BspACI	CCGC	1 cut(s)	534
BspANI	GGCC	1 cut(s)	622
BspFNI	CGCG	1 cut(s)	227
BspPI	GGATC	1 cut(s)	971
BspTI	CTTAAG	1 cut(s)	653
BsrGI	TGTACA	2 cut(s)	513, 552
BsrI	ACTGG	2 cut(s)	510, 994
BssECI	CCNNGG	3 cut(s)	136, 370, 452
BssMI	GATC	3 cut(s)	15, 415, 963
BssT1I	CCWWGG	1 cut(s)	136
Bst2UI	CCWGG	2 cut(s)	372, 453
Bst4CI	ACNGT	4 cut(s)	152, 178, 325, 439
BstAFI	CTTAAG	1 cut(s)	653
BstAUI	TGTACA	2 cut(s)	513, 552
BstC8I	GCNNGC	3 cut(s)	250, 733, 811
BstDEI	CTNAG	2 cut(s)	632, 847
BstF5I	GGATG	1 cut(s)	496
BstFNI	CGCG	1 cut(s)	227
BstHHI	GCGC	1 cut(s)	227
BstKTI	GATC	3 cut(s)	18, 418, 966
BstMAI	GTCTC	1 cut(s)	758
BstMBI	GATC	3 cut(s)	15, 415, 963
BstNI	CCWGG	2 cut(s)	372, 453
BstNSI	RCATGY	2 cut(s)	407, 813
BstPAI	GACNNNNGTC	1 cut(s)	138
BstSCI	CCNGG	2 cut(s)	370, 451
BstUI	CGCG	1 cut(s)	227
BstV1I	GCAGC	1 cut(s)	715
BstV2I	GAAGAC	3 cut(s)	134, 406, 503
BstX2I	RGATCY	1 cut(s)	963
BstYI	RGATCY	1 cut(s)	963
BsuRI	GGCC	1 cut(s)	622
BtsCI	GGATG	1 cut(s)	496
BtsIMutI	CAGTG	1 cut(s)	159
Cac8I	GCNNGC	3 cut(s)	250, 733, 811
CfoI	GCGC	1 cut(s)	227
Cfr13I	GGNCC	1 cut(s)	449
Csp6I	GTAC	6 cut(s)	127, 205, 321, 514, 553, 987
CviAII	CATG	4 cut(s)	253, 404, 550, 810
CviQI	GTAC	6 cut(s)	127, 205, 321, 514, 553, 987
DdeI	CTNAG	2 cut(s)	632, 847
DpnI	GATC	3 cut(s)	17, 417, 965
DpnII	GATC	3 cut(s)	15, 415, 963
EciI	GGCGGA	1 cut(s)	549
Eco130I	CCWWGG	1 cut(s)	136
Eco47I	GGWCC	1 cut(s)	449
EcoO109I	RGGNCCY	1 cut(s)	449
EcoRII	CCWGG	2 cut(s)	370, 451
EcoT14I	CCWWGG	1 cut(s)	136
EcoT22I	ATGCAT	1 cut(s)	395
ErhI	CCWWGG	1 cut(s)	136
Esp3I	CGTCTC	1 cut(s)	758
FaeI	CATG	4 cut(s)	256, 407, 553, 813
FalI	AAGNNNNNCTT	2 cut(s)	391, 423
FaqI	GGGAC	2 cut(s)	273, 310
FatI	CATG	4 cut(s)	252, 403, 549, 809
FauNDI	CATATG	1 cut(s)	737
FbaI	TGATCA	1 cut(s)	415
Fnu4HI	GCNGC	1 cut(s)	729
FokI	GGATG	1 cut(s)	503
Fsp4HI	GCNGC	1 cut(s)	729
FspBI	CTAG	3 cut(s)	875, 998, 1093
GlaI	GCGC	1 cut(s)	226
GluI	GCNGC	1 cut(s)	729
HaeIII	GGCC	1 cut(s)	622
HhaI	GCGC	1 cut(s)	227
Hin1II	CATG	4 cut(s)	256, 407, 553, 813
Hin6I	GCGC	1 cut(s)	225
HinP1I	GCGC	1 cut(s)	225
HindIII	AAGCTT	2 cut(s)	92, 588
HinfI	GANTC	5 cut(s)	61, 286, 340, 566, 672
HphI	GGTGA	2 cut(s)	140, 425
Hpy166II	GTNNAC	3 cut(s)	514, 697, 1017
Hpy188I	TCNGA	1 cut(s)	332
Hpy188III	TCNNGA	5 cut(s)	10, 40, 73, 479, 689
Hpy8I	GTNNAC	3 cut(s)	514, 697, 1017
Hpy99I	CGWCG	1 cut(s)	41
HpyAV	CCTTC	6 cut(s)	250, 476, 524, 785, 1049, 1053
HpyCH4III	ACNGT	4 cut(s)	152, 178, 325, 439
HpyCH4V	TGCA	9 cut(s)	188, 348, 393, 584, 779, 813, 835, 891, 949
HpyF3I	CTNAG	2 cut(s)	632, 847
Hsp92II	CATG	4 cut(s)	256, 407, 553, 813
HspAI	GCGC	1 cut(s)	225
Ksp22I	TGATCA	1 cut(s)	415
Kzo9I	GATC	3 cut(s)	15, 415, 963
Lsp1109I	GCAGC	1 cut(s)	715
LweI	GCATC	1 cut(s)	145
MaeI	CTAG	3 cut(s)	875, 998, 1093
MaeIII	GTNAC	1 cut(s)	172
MalI	GATC	3 cut(s)	17, 417, 965
MboI	GATC	3 cut(s)	15, 415, 963
MboII	GAAGA	6 cut(s)	25, 134, 411, 508, 681, 1075
MfeI	CAATTG	1 cut(s)	543
MflI	RGATCY	1 cut(s)	963
MluCI	AATT	6 cut(s)	66, 464, 517, 543, 817, 1073
MlyI	GAGTC	3 cut(s)	55, 295, 575
MmeI	TCCRAC	1 cut(s)	356
MnlI	CCTC	5 cut(s)	156, 184, 276, 633, 907
Mph1103I	ATGCAT	1 cut(s)	395
MseI	TTAA	3 cut(s)	123, 654, 783
MslI	CAYNNNNRTG	2 cut(s)	153, 920
MspCI	CTTAAG	1 cut(s)	653
MspR9I	CCNGG	2 cut(s)	372, 453
MunI	CAATTG	1 cut(s)	543
MvaI	CCWGG	2 cut(s)	372, 453
MvnI	CGCG	1 cut(s)	227
NdeI	CATATG	1 cut(s)	737
NdeII	GATC	3 cut(s)	15, 415, 963
NlaIII	CATG	4 cut(s)	256, 407, 553, 813
NsiI	ATGCAT	1 cut(s)	395
NspI	RCATGY	2 cut(s)	407, 813
PaeI	GCATGC	1 cut(s)	813
PfeI	GAWTC	2 cut(s)	340, 672
PkrI	GCNGC	1 cut(s)	730
PleI	GAGTC	3 cut(s)	55, 294, 574
PpsI	GAGTC	3 cut(s)	55, 294, 574
PpuMI	RGGWCCY	1 cut(s)	449
PshAI	GACNNNNGTC	1 cut(s)	138
Psp5II	RGGWCCY	1 cut(s)	449
Psp6I	CCWGG	2 cut(s)	370, 451
PspGI	CCWGG	2 cut(s)	370, 451
PspPI	GGNCC	1 cut(s)	449
PspPPI	RGGWCCY	1 cut(s)	449
PsuI	RGATCY	1 cut(s)	963
RsaI	GTAC	6 cut(s)	128, 206, 322, 515, 554, 988
RsaNI	GTAC	6 cut(s)	127, 205, 321, 514, 553, 987
RseI	CAYNNNNRTG	2 cut(s)	153, 920
SaqAI	TTAA	3 cut(s)	123, 654, 783
SatI	GCNGC	1 cut(s)	729
Sau3AI	GATC	3 cut(s)	15, 415, 963
Sau96I	GGNCC	1 cut(s)	449
ScaI	AGTACT	2 cut(s)	128, 988
SchI	GAGTC	3 cut(s)	55, 295, 575
ScrFI	CCNGG	2 cut(s)	372, 453
SfaNI	GCATC	1 cut(s)	145
SinI	GGWCC	1 cut(s)	449
SmiMI	CAYNNNNRTG	2 cut(s)	153, 920
SmlI	CTYRAG	3 cut(s)	200, 653, 852
SmoI	CTYRAG	3 cut(s)	200, 653, 852
SphI	GCATGC	1 cut(s)	813
Sse9I	AATT	6 cut(s)	66, 464, 517, 543, 817, 1073
SsiI	CCGC	1 cut(s)	534
SspI	AATATT	1 cut(s)	310
SspMI	CTAG	3 cut(s)	875, 998, 1093
StyD4I	CCNGG	2 cut(s)	370, 451
StyI	CCWWGG	1 cut(s)	136
TaaI	ACNGT	4 cut(s)	152, 178, 325, 439
TaqI	TCGA	4 cut(s)	9, 39, 64, 424
TasI	AATT	6 cut(s)	66, 464, 517, 543, 817, 1073
TatI	WGTACW	5 cut(s)	126, 204, 513, 552, 986
TfiI	GAWTC	2 cut(s)	340, 672
Tru1I	TTAA	3 cut(s)	123, 654, 783
Tru9I	TTAA	3 cut(s)	123, 654, 783
TscAI	CASTG	1 cut(s)	166
TseI	GCWGC	1 cut(s)	728
TspDTI	ATGAA	5 cut(s)	258, 269, 611, 738, 759
TspGWI	ACGGA	3 cut(s)	63, 563, 681
TspRI	CASTG	1 cut(s)	166
Vha464I	CTTAAG	1 cut(s)	653
VpaK11BI	GGWCC	1 cut(s)	449
XapI	RAATTY	2 cut(s)	66, 1073
XceI	RCATGY	2 cut(s)	407, 813
XcmI	CCANNNNNNNNNTGG	1 cut(s)	40
XspI	CTAG	3 cut(s)	875, 998, 1093
ZrmI	AGTACT	2 cut(s)	128, 988
Zsp2I	ATGCAT	1 cut(s)	395

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