Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0001254

Physical Location & Seq

Genomic Coordinates Forward (+)

46658088 .. 46685475

Gene Structure 27388 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG328100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 945 bp

ATGATGCATTGTTTCCATGATGCAGGAGATGAAATGACTCGAATTTTCTGGAAATCTATAAAAGATAAGCTTATTTTGCCCTTTCTGGAACTGGATATCAAGTACTTTGATCTTGGCCTCCCTAATCGTGATGCCACCAGTGATAGAGTCACAATTGAAAGTGCAGAAGCTACTCTTAAGTACAATGTAGCAATCAAGTGTGCAACTATAACTCCTGATGAAACTCGTGTTAAGGAGTTCAACTTGAAACAGATGTGGAGGAGTCCAAATGGGACAATCCGGAACATTTTAAATGGTACTGTTTTTAGAGAACCTATTATCTGCAGAAATGTTCCCCGCCTTGTTCCAGGTTGGACGAGGCCAATATGCATTGGGAGGCATGCTTTCGGTGATCAGTACCAAGCAACTGATGCAATCATAAAAGGACCTGGGAAACTTAAATTAGTTTTTGAATATGAGGTTTTCAACTTTACTGGTGCTGGAGGGGTAGCTCTGTCAATGTATAACACTGATGAGAAAAAGTGGCCACTTTATCTTAGCACTAAAAATACTATTCTCAAGAAATATGATGGAAGATTCAAGGACATCTTCCAGGAAATTTATGAAACTCATTGGAGATCCAGATTTGAAGCCTCATCGAAATATCCCTCCCCGACGGATATTATGTTAGCCATGACAAGGAAGAAGAGTCCATCTTTAGACTGCAACAGAAAATGTCAGGGTGATGCTGATGGGTATGATTTAGTTGTTGTTGATGCCATGCATAAAGCAACCTATGCAAGTAGAATTTGTCACTCGTGCCGACCTAATTGTGAAGCAAAGGTAATGACATTAAAAACACAACAGGAAAAAGAAAAAGAACCCTTGACAGAGACAACAAACAAAACTACACAAATAACTTACTTCTCCACAAGTGACGTGGAACAGGTAAGCCTCTACAAGTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005777 GO:0005886 GO:0016020 GO:0042579 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0071944

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

314

Amino Acids

36.11

Weight (kDa)

8.81

Isoelectric Point (pI)

35.31

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Iso_dh	PF00180	8 - 203	2.7e-28	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)
AccIII	TCCGGA	1 cut(s)	279
AciI	CCGC	1 cut(s)	337
AclWI	GGATC	1 cut(s)	612
AcoI	YGGCCR	1 cut(s)	524
AcsI	RAATTY	3 cut(s)	42, 597, 786
AfaI	GTAC	4 cut(s)	104, 182, 298, 398
AfiI	CCNNNNNNNGG	1 cut(s)	678
AflII	CTTAAG	1 cut(s)	176
AgsI	TTSAA	7 cut(s)	158, 241, 247, 452, 466, 580, 629
AjiI	CACGTC	1 cut(s)	919
AjnI	CCWGG	3 cut(s)	346, 427, 591
AluBI	AGCT	3 cut(s)	70, 170, 491
AluI	AGCT	3 cut(s)	70, 170, 491
Alw26I	GTCTC	1 cut(s)	866
AlwI	GGATC	1 cut(s)	612
Aor13HI	TCCGGA	1 cut(s)	279
AoxI	GGCC	3 cut(s)	115, 359, 524
ApoI	RAATTY	3 cut(s)	42, 597, 786
AspS9I	GGNCC	1 cut(s)	425
AsuHPI	GGTGA	2 cut(s)	401, 734
AvaII	GGWCC	1 cut(s)	425
BalI	TGGCCA	1 cut(s)	526
BauI	CACGAG	2 cut(s)	225, 796
BccI	CCATC	3 cut(s)	563, 700, 725
BciT130I	CCWGG	3 cut(s)	348, 429, 593
BclI	TGATCA	1 cut(s)	391
BcoDI	GTCTC	1 cut(s)	866
BfmI	CTRYAG	1 cut(s)	322
BfrI	CTTAAG	1 cut(s)	176
BmcAI	AGTACT	1 cut(s)	104
Bme1390I	CCNGG	3 cut(s)	348, 429, 593
Bme18I	GGWCC	1 cut(s)	425
BmgBI	CACGTC	1 cut(s)	919
BmgT120I	GGNCC	1 cut(s)	425
BmrFI	CCNGG	3 cut(s)	348, 429, 593
BmsI	GCATC	5 cut(s)	10, 121, 400, 715, 745
BpmI	CTGGAG	1 cut(s)	501
BpuEI	CTTGAG	1 cut(s)	542
BsaJI	CCNNGG	1 cut(s)	428
BsaWI	WCCGGW	1 cut(s)	279
BsaXI	ACNNNNNCTCC	2 cut(s)	196, 226
Bsc4I	CCNNNNNNNGG	1 cut(s)	678
Bse1I	ACTGG	3 cut(s)	96, 138, 478
BseAI	TCCGGA	1 cut(s)	279
BseBI	CCWGG	3 cut(s)	348, 429, 593
BseDI	CCNNGG	1 cut(s)	428
BseLI	CCNNNNNNNGG	1 cut(s)	678
BseNI	ACTGG	3 cut(s)	96, 138, 478
BseRI	GAGGAG	1 cut(s)	274
BsgI	GTGCAG	1 cut(s)	183
BshFI	GGCC	3 cut(s)	117, 361, 526
BsiSI	CCGG	1 cut(s)	280
BslFI	GGGAC	1 cut(s)	286
BslI	CCNNNNNNNGG	1 cut(s)	678
BsmAI	GTCTC	1 cut(s)	866
BsmFI	GGGAC	1 cut(s)	286
BsnI	GGCC	3 cut(s)	117, 361, 526
Bsp13I	TCCGGA	1 cut(s)	279
Bsp143I	GATC	3 cut(s)	109, 391, 617
BspACI	CCGC	1 cut(s)	337
BspANI	GGCC	3 cut(s)	117, 361, 526
BspEI	TCCGGA	1 cut(s)	279
BspMAI	CTGCAG	1 cut(s)	326
BspPI	GGATC	1 cut(s)	612
BspTI	CTTAAG	1 cut(s)	176
BsrI	ACTGG	3 cut(s)	96, 138, 478
BssECI	CCNNGG	1 cut(s)	428
BssMI	GATC	3 cut(s)	109, 391, 617
BssSI	CACGAG	2 cut(s)	225, 796
Bst2BI	CACGAG	2 cut(s)	225, 796
Bst2UI	CCWGG	3 cut(s)	348, 429, 593
Bst4CI	ACNGT	1 cut(s)	301
Bst6I	CTCTTC	1 cut(s)	680
BstAFI	CTTAAG	1 cut(s)	176
BstAPI	GCANNNNNTGC	2 cut(s)	410, 776
BstC8I	GCNNGC	1 cut(s)	381
BstDEI	CTNAG	1 cut(s)	536
BstKTI	GATC	3 cut(s)	112, 394, 620
BstMAI	GTCTC	1 cut(s)	866
BstMBI	GATC	3 cut(s)	109, 391, 617
BstMWI	GCNNNNNNNGC	3 cut(s)	76, 410, 776
BstNI	CCWGG	3 cut(s)	348, 429, 593
BstNSI	RCATGY	1 cut(s)	383
BstSCI	CCNGG	3 cut(s)	346, 427, 591
BstSFI	CTRYAG	1 cut(s)	322
BstX2I	RGATCY	1 cut(s)	617
BstYI	RGATCY	1 cut(s)	617
BsuRI	GGCC	3 cut(s)	117, 361, 526
BtrI	CACGTC	1 cut(s)	919
BtsIMutI	CAGTG	2 cut(s)	145, 507
Cac8I	GCNNGC	1 cut(s)	381
Cfr13I	GGNCC	1 cut(s)	425
Csp6I	GTAC	4 cut(s)	103, 181, 297, 397
CspCI	CAANNNNNGTGG	2 cut(s)	900, 935
CviAII	CATG	4 cut(s)	17, 380, 673, 760
CviJI	RGCY	9 cut(s)	70, 117, 170, 361, 491, 526, 632, 671, 933
CviKI_1	RGCY	9 cut(s)	70, 117, 170, 361, 491, 526, 632, 671, 933
CviQI	GTAC	4 cut(s)	103, 181, 297, 397
DdeI	CTNAG	1 cut(s)	536
DpnI	GATC	3 cut(s)	111, 393, 619
DpnII	GATC	3 cut(s)	109, 391, 617
DraI	TTTAAA	1 cut(s)	291
EaeI	YGGCCR	1 cut(s)	524
Eam1104I	CTCTTC	1 cut(s)	680
EarI	CTCTTC	1 cut(s)	680
Eco32I	GATATC	1 cut(s)	97
Eco47I	GGWCC	1 cut(s)	425
EcoO109I	RGGNCCY	1 cut(s)	425
EcoRII	CCWGG	3 cut(s)	346, 427, 591
EcoRV	GATATC	1 cut(s)	97
EcoT22I	ATGCAT	3 cut(s)	9, 371, 765
FaeI	CATG	4 cut(s)	20, 383, 676, 763
FalI	AAGNNNNNCTT	6 cut(s)	54, 86, 159, 191, 572, 604
FaqI	GGGAC	1 cut(s)	286
FatI	CATG	4 cut(s)	16, 379, 672, 759
FauI	CCCGC	1 cut(s)	344
FbaI	TGATCA	1 cut(s)	391
GsuI	CTGGAG	1 cut(s)	501
HaeIII	GGCC	3 cut(s)	117, 361, 526
HapII	CCGG	1 cut(s)	280
Hin1II	CATG	4 cut(s)	20, 383, 676, 763
HindIII	AAGCTT	1 cut(s)	68
HinfI	GANTC	5 cut(s)	37, 147, 262, 576, 688
HpaII	CCGG	1 cut(s)	280
HphI	GGTGA	2 cut(s)	401, 734
Hpy188III	TCNNGA	7 cut(s)	49, 86, 128, 215, 280, 559, 621
Hpy99I	CGWCG	1 cut(s)	658
HpyCH4III	ACNGT	1 cut(s)	301
HpyCH4IV	ACGT	1 cut(s)	918
HpyF10VI	GCNNNNNNNGC	3 cut(s)	76, 410, 776
HpyF3I	CTNAG	1 cut(s)	536
HpySE526I	ACGT	1 cut(s)	918
Hsp92II	CATG	4 cut(s)	20, 383, 676, 763
Kpn2I	TCCGGA	1 cut(s)	279
Ksp22I	TGATCA	1 cut(s)	391
Kzo9I	GATC	3 cut(s)	109, 391, 617
LweI	GCATC	5 cut(s)	10, 121, 400, 715, 745
MaeII	ACGT	1 cut(s)	918
MaeIII	GTNAC	3 cut(s)	148, 791, 914
MalI	GATC	3 cut(s)	111, 393, 619
MboI	GATC	3 cut(s)	109, 391, 617
MboII	GAAGA	4 cut(s)	580, 585, 694, 697
MfeI	CAATTG	1 cut(s)	153
MflI	RGATCY	1 cut(s)	617
MlsI	TGGCCA	1 cut(s)	526
MluCI	AATT	6 cut(s)	42, 153, 440, 597, 786, 808
MluNI	TGGCCA	1 cut(s)	526
MlyI	GAGTC	4 cut(s)	31, 156, 271, 697
MmeI	TCCRAC	1 cut(s)	332
MnlI	CCTC	9 cut(s)	128, 252, 351, 369, 451, 476, 643, 658, 944
Mox20I	TGGCCA	1 cut(s)	526
Mph1103I	ATGCAT	3 cut(s)	9, 371, 765
MroI	TCCGGA	1 cut(s)	279
MscI	TGGCCA	1 cut(s)	526
MseI	TTAA	5 cut(s)	177, 231, 290, 438, 833
Msp20I	TGGCCA	1 cut(s)	526
MspCI	CTTAAG	1 cut(s)	176
MspI	CCGG	1 cut(s)	280
MspR9I	CCNGG	3 cut(s)	348, 429, 593
MunI	CAATTG	1 cut(s)	153
MvaI	CCWGG	3 cut(s)	348, 429, 593
MwoI	GCNNNNNNNGC	3 cut(s)	76, 410, 776
NdeII	GATC	3 cut(s)	109, 391, 617
NlaIII	CATG	4 cut(s)	20, 383, 676, 763
NmuCI	GTSAC	3 cut(s)	148, 791, 914
NsiI	ATGCAT	3 cut(s)	9, 371, 765
NspI	RCATGY	1 cut(s)	383
PaeI	GCATGC	1 cut(s)	383
PfeI	GAWTC	1 cut(s)	576
PfoI	TCCNGGA	1 cut(s)	591
PleI	GAGTC	4 cut(s)	31, 155, 270, 696
PpsI	GAGTC	4 cut(s)	31, 155, 270, 696
PpuMI	RGGWCCY	1 cut(s)	425
Psp5II	RGGWCCY	1 cut(s)	425
Psp6I	CCWGG	3 cut(s)	346, 427, 591
PspGI	CCWGG	3 cut(s)	346, 427, 591
PspPI	GGNCC	1 cut(s)	425
PspPPI	RGGWCCY	1 cut(s)	425
PstI	CTGCAG	1 cut(s)	326
PsuI	RGATCY	1 cut(s)	617
RsaI	GTAC	4 cut(s)	104, 182, 298, 398
RsaNI	GTAC	4 cut(s)	103, 181, 297, 397
SaqAI	TTAA	5 cut(s)	177, 231, 290, 438, 833
Sau3AI	GATC	3 cut(s)	109, 391, 617
Sau96I	GGNCC	1 cut(s)	425
ScaI	AGTACT	1 cut(s)	104
SchI	GAGTC	4 cut(s)	31, 156, 271, 697
ScrFI	CCNGG	3 cut(s)	348, 429, 593
SfaNI	GCATC	5 cut(s)	10, 121, 400, 715, 745
SfcI	CTRYAG	1 cut(s)	322
SinI	GGWCC	1 cut(s)	425
SmlI	CTYRAG	2 cut(s)	176, 557
SmoI	CTYRAG	2 cut(s)	176, 557
SphI	GCATGC	1 cut(s)	383
Sse9I	AATT	6 cut(s)	42, 153, 440, 597, 786, 808
SsiI	CCGC	1 cut(s)	337
StyD4I	CCNGG	3 cut(s)	346, 427, 591
TaaI	ACNGT	1 cut(s)	301
TaiI	ACGT	1 cut(s)	921
TaqI	TCGA	2 cut(s)	40, 638
TasI	AATT	6 cut(s)	42, 153, 440, 597, 786, 808
TatI	WGTACW	2 cut(s)	102, 180
TfiI	GAWTC	1 cut(s)	576
Tru1I	TTAA	5 cut(s)	177, 231, 290, 438, 833
Tru9I	TTAA	5 cut(s)	177, 231, 290, 438, 833
TscAI	CASTG	2 cut(s)	145, 514
TseFI	GTSAC	3 cut(s)	148, 791, 914
Tsp45I	GTSAC	3 cut(s)	148, 791, 914
TspDTI	ATGAA	3 cut(s)	45, 234, 618
TspGWI	ACGGA	1 cut(s)	671
TspRI	CASTG	2 cut(s)	145, 514
Vha464I	CTTAAG	1 cut(s)	176
VpaK11BI	GGWCC	1 cut(s)	425
XapI	RAATTY	3 cut(s)	42, 597, 786
XceI	RCATGY	1 cut(s)	383
XcmI	CCANNNNNNNNNTGG	1 cut(s)	916
ZrmI	AGTACT	1 cut(s)	104
Zsp2I	ATGCAT	3 cut(s)	9, 371, 765

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