Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0007924

Physical Location & Seq

Genomic Coordinates Reverse (-)

46468631 .. 46469469

Gene Structure 839 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00318990.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 687 bp

ATGCCGTATCCCAAGAATTTGGAGACCGCAAAGGAGGTTGAGGCAATTGTCGGGGAAAATGGGGCTGTTCTCGCCACCATTGCTATCTTGGATGGCACACCTTGCATAGAAGAACTGGAGAGGCTTGCCGATTGGGTCCAAGAACTCGAAGACGGCTCGAAGAGACATTGCACATCTTGGAAGGACACCGTAGCTGTCATCTCTGCTGGTGTAAAATCAATTTTGGATATCCCAAGGACCCTCGAATATTTGGAAACACGGGGAGTTTGTGTAGCTGCTTACAAGACCAATGAATTTCCAGCATTTTTTCACGAAGCAAGTGGCTGCAAGGTGCCTTGCCGTGTAGATACCCCCGATGATTGCGCTCGGCTTATAGATGCAAACCTTAAACTTGAGCTTGCGACCGGAATGCGATTGCTGTTCCAATTTCCAAAAGAACACTCGGCTTCCGGAAATTTAATTGAGTCCGCAATACGTACAGCTCTTAGAGAAGCTAGGGATAAGAACATAACGAGCAATGTCGCTACTCCATTCTTGCTTGCAAGAGTAAATGAACTAACCGGAGGAGCATCTTTGGCTTCGAACATTGCCCCGGTGAAGAATAATGCACTTGTTGGTTCTAAAATTGTTGTAGCACTTTCCCGGATCGAGAATGTTGTAGAAAAGGTGGTTTGGAGTAAGCACTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

ko00240 map00240

Pfam Domains

Protein Families

Indigoidine_A

Protein Analysis

228

Amino Acids

24.81

Weight (kDa)

5.67

Isoelectric Point (pI)

25.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Indigoidine_A	PF04227	1 - 53	6.6e-09	Indigoidine synthase A like protein
Indigoidine_A	PF04227	63 - 211	8.9e-50	Indigoidine synthase A like protein

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

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Align Labels (Cladogram)

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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0007924)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G50510
fragaria_vesca	FvH4_3g28170 FvH4_3g28170
malus_domestica	MD11G1196200.v1.1
prunus_persica	Prupe.4G258300_v2.0.a1 Prupe.4G258300_v2.0.a1 Prupe.4G258300_v2.0.a1
pyrus_communis	pycom11g16360
rosa_chinensis	RchiOBHm_Chr5g0050911
rosa_laevigata	RLG00000034743
rosa_multiflora	Rmu_sc0040613.1_g000001 Rmu_ssc0000397.1_g000002 Rmu_ssc0000397.1_g000006
rosa_roxburghii	Rroxscaffold_1G00029820 Rroxscaffold_3G00229240 Rroxscaffold_4G00318990 Rroxscaffold_4G00319000
rosa_rugosa	Rorug05G0265000.1 Rorug05G0265100.1
rosa_samantha	Rh5AG336900 Rh5BG346400 Rh5CG374100 Rh5DG359400
rosa_wichuraiana	Rw5G031760

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB1I	GGYRCC	1 cut(s)	331
AccIII	TCCGGA	1 cut(s)	449
AciI	CCGC	2 cut(s)	27, 468
AclWI	GGATC	1 cut(s)	653
AcsI	RAATTY	3 cut(s)	16, 293, 454
AfaI	GTAC	1 cut(s)	478
AluBI	AGCT	5 cut(s)	194, 275, 397, 482, 494
AluI	AGCT	5 cut(s)	194, 275, 397, 482, 494
Alw26I	GTCTC	2 cut(s)	17, 157
AlwI	GGATC	1 cut(s)	653
Aor13HI	TCCGGA	1 cut(s)	449
ApeKI	GCWGC	2 cut(s)	275, 324
ApoI	RAATTY	3 cut(s)	16, 293, 454
AspLEI	GCGC	1 cut(s)	365
AspS9I	GGNCC	2 cut(s)	136, 237
AsuC2I	CCSGG	2 cut(s)	593, 643
AsuHPI	GGTGA	1 cut(s)	607
AsuII	TTCGAA	1 cut(s)	581
AvaII	GGWCC	2 cut(s)	136, 237
BanI	GGYRCC	1 cut(s)	331
BbsI	GAAGAC	1 cut(s)	156
BbvI	GCAGC	2 cut(s)	262, 311
BccI	CCATC	1 cut(s)	86
BceAI	ACGGC	2 cut(s)	169, 324
BcgI	CGANNNNNNTGC	2 cut(s)	391, 425
BciVI	GTATCC	1 cut(s)	18
BcnI	CCSGG	2 cut(s)	593, 643
BcoDI	GTCTC	2 cut(s)	17, 157
BfaI	CTAG	2 cut(s)	495, 685
BfuI	GTATCC	1 cut(s)	18
BisI	GCNGC	2 cut(s)	276, 325
BlsI	GCNGC	2 cut(s)	277, 326
Bme1390I	CCNGG	2 cut(s)	593, 643
Bme18I	GGWCC	2 cut(s)	136, 237
BmgT120I	GGNCC	2 cut(s)	136, 237
BmiI	GGNNCC	3 cut(s)	137, 239, 333
BmrFI	CCNGG	2 cut(s)	593, 643
BmsI	GCATC	2 cut(s)	367, 578
BpiI	GAAGAC	1 cut(s)	156
BpmI	CTGGAG	1 cut(s)	137
Bpu14I	TTCGAA	1 cut(s)	581
BpuEI	CTTGAG	1 cut(s)	413
BpuMI	CCSGG	2 cut(s)	593, 643
BsaAI	YACGTR	1 cut(s)	476
BsaI	GGTCTC	1 cut(s)	17
BsaJI	CCNNGG	2 cut(s)	233, 591
BsaWI	WCCGGW	3 cut(s)	404, 449, 560
BsaXI	ACNNNNNCTCC	2 cut(s)	255, 285
Bse1I	ACTGG	1 cut(s)	120
Bse3DI	GCAATG	4 cut(s)	78, 166, 523, 585
BseAI	TCCGGA	1 cut(s)	449
BseDI	CCNNGG	2 cut(s)	233, 591
BseGI	GGATG	1 cut(s)	97
BseMI	GCAATG	4 cut(s)	78, 166, 523, 585
BseNI	ACTGG	1 cut(s)	120
BseRI	GAGGAG	1 cut(s)	579
BseXI	GCAGC	2 cut(s)	262, 311
Bsh1285I	CGRYCG	1 cut(s)	405
BshNI	GGYRCC	1 cut(s)	331
BsiEI	CGRYCG	1 cut(s)	405
BsiSI	CCGG	5 cut(s)	405, 450, 561, 593, 643
BsmAI	GTCTC	2 cut(s)	17, 157
BsmI	GAATGC	1 cut(s)	414
Bso31I	GGTCTC	1 cut(s)	17
Bsp119I	TTCGAA	1 cut(s)	581
Bsp13I	TCCGGA	1 cut(s)	449
Bsp143I	GATC	1 cut(s)	645
BspACI	CCGC	2 cut(s)	27, 468
BspEI	TCCGGA	1 cut(s)	449
BspLI	GGNNCC	3 cut(s)	137, 239, 333
BspPI	GGATC	1 cut(s)	653
BspT104I	TTCGAA	1 cut(s)	581
BspT107I	GGYRCC	1 cut(s)	331
BspTNI	GGTCTC	1 cut(s)	17
BsrDI	GCAATG	4 cut(s)	78, 166, 523, 585
BsrI	ACTGG	1 cut(s)	120
BssECI	CCNNGG	2 cut(s)	233, 591
BssMI	GATC	1 cut(s)	645
BssT1I	CCWWGG	1 cut(s)	233
Bst4CI	ACNGT	1 cut(s)	190
Bst6I	CTCTTC	1 cut(s)	155
BstAPI	GCANNNNNTGC	1 cut(s)	102
BstBAI	YACGTR	1 cut(s)	476
BstBI	TTCGAA	1 cut(s)	581
BstC8I	GCNNGC	3 cut(s)	126, 399, 540
BstDEI	CTNAG	1 cut(s)	485
BstF5I	GGATG	1 cut(s)	97
BstHHI	GCGC	1 cut(s)	365
BstKTI	GATC	1 cut(s)	648
BstMAI	GTCTC	2 cut(s)	17, 157
BstMBI	GATC	1 cut(s)	645
BstMCI	CGRYCG	1 cut(s)	405
BstMWI	GCNNNNNNNGC	4 cut(s)	71, 80, 102, 575
BstSCI	CCNGG	2 cut(s)	591, 641
BstSNI	TACGTA	1 cut(s)	476
BstV1I	GCAGC	2 cut(s)	262, 311
BstV2I	GAAGAC	1 cut(s)	156
BstXI	CCANNNNNNTGG	1 cut(s)	19
BsuI	GTATCC	1 cut(s)	18
BtsCI	GGATG	1 cut(s)	97
Cac8I	GCNNGC	3 cut(s)	126, 399, 540
CfoI	GCGC	1 cut(s)	365
Cfr13I	GGNCC	2 cut(s)	136, 237
Csp6I	GTAC	1 cut(s)	477
CviQI	GTAC	1 cut(s)	477
DdeI	CTNAG	1 cut(s)	485
DpnI	GATC	1 cut(s)	647
DpnII	GATC	1 cut(s)	645
Eam1104I	CTCTTC	1 cut(s)	155
EarI	CTCTTC	1 cut(s)	155
Eco105I	TACGTA	1 cut(s)	476
Eco130I	CCWWGG	1 cut(s)	233
Eco31I	GGTCTC	1 cut(s)	17
Eco32I	GATATC	1 cut(s)	229
Eco47I	GGWCC	2 cut(s)	136, 237
EcoO109I	RGGNCCY	1 cut(s)	237
EcoRV	GATATC	1 cut(s)	229
EcoT14I	CCWWGG	1 cut(s)	233
ErhI	CCWWGG	1 cut(s)	233
FaiI	YATR	3 cut(s)	107, 374, 509
Fnu4HI	GCNGC	2 cut(s)	276, 325
FokI	GGATG	1 cut(s)	104
Fsp4HI	GCNGC	2 cut(s)	276, 325
FspBI	CTAG	2 cut(s)	495, 685
GlaI	GCGC	1 cut(s)	364
GluI	GCNGC	2 cut(s)	276, 325
GsuI	CTGGAG	1 cut(s)	137
HapII	CCGG	5 cut(s)	405, 450, 561, 593, 643
HhaI	GCGC	1 cut(s)	365
Hin6I	GCGC	1 cut(s)	363
HinP1I	GCGC	1 cut(s)	363
HinfI	GANTC	1 cut(s)	464
HpaII	CCGG	5 cut(s)	405, 450, 561, 593, 643
HphI	GGTGA	1 cut(s)	607
Hpy188III	TCNNGA	3 cut(s)	311, 450, 649
HpyAV	CCTTC	1 cut(s)	175
HpyCH4III	ACNGT	1 cut(s)	190
HpyCH4IV	ACGT	1 cut(s)	475
HpyCH4V	TGCA	6 cut(s)	105, 171, 327, 380, 542, 608
HpyF10VI	GCNNNNNNNGC	4 cut(s)	71, 80, 102, 575
HpyF3I	CTNAG	1 cut(s)	485
HpySE526I	ACGT	1 cut(s)	475
HspAI	GCGC	1 cut(s)	363
Kpn2I	TCCGGA	1 cut(s)	449
Kzo9I	GATC	1 cut(s)	645
LmnI	GCTCC	1 cut(s)	566
LpnPI	CCDG	8 cut(s)	101, 192, 312, 418, 463, 574, 606, 656
Lsp1109I	GCAGC	2 cut(s)	262, 311
LweI	GCATC	2 cut(s)	367, 578
MaeI	CTAG	2 cut(s)	495, 685
MaeII	ACGT	1 cut(s)	475
MalI	GATC	1 cut(s)	647
MboI	GATC	1 cut(s)	645
MboII	GAAGA	4 cut(s)	122, 161, 172, 610
MfeI	CAATTG	1 cut(s)	45
MluCI	AATT	8 cut(s)	16, 45, 219, 293, 425, 454, 459, 624
MlyI	GAGTC	1 cut(s)	473
MnlI	CCTC	5 cut(s)	28, 34, 114, 251, 557
MroI	TCCGGA	1 cut(s)	449
MseI	TTAA	2 cut(s)	387, 458
MspI	CCGG	5 cut(s)	405, 450, 561, 593, 643
MspR9I	CCNGG	2 cut(s)	593, 643
MunI	CAATTG	1 cut(s)	45
Mva1269I	GAATGC	1 cut(s)	414
MwoI	GCNNNNNNNGC	4 cut(s)	71, 80, 102, 575
NciI	CCSGG	2 cut(s)	593, 643
NdeII	GATC	1 cut(s)	645
NlaIV	GGNNCC	3 cut(s)	137, 239, 333
NmeAIII	GCCGAG	2 cut(s)	346, 422
NspV	TTCGAA	1 cut(s)	581
PctI	GAATGC	1 cut(s)	414
PfoI	TCCNGGA	1 cut(s)	641
PkrI	GCNGC	2 cut(s)	277, 326
PleI	GAGTC	1 cut(s)	472
PpsI	GAGTC	1 cut(s)	472
Ppu21I	YACGTR	1 cut(s)	476
PpuMI	RGGWCCY	1 cut(s)	237
Psp5II	RGGWCCY	1 cut(s)	237
PspN4I	GGNNCC	3 cut(s)	137, 239, 333
PspPI	GGNCC	2 cut(s)	136, 237
PspPPI	RGGWCCY	1 cut(s)	237
RsaI	GTAC	1 cut(s)	478
RsaNI	GTAC	1 cut(s)	477
SaqAI	TTAA	2 cut(s)	387, 458
SatI	GCNGC	2 cut(s)	276, 325
Sau3AI	GATC	1 cut(s)	645
Sau96I	GGNCC	2 cut(s)	136, 237
SchI	GAGTC	1 cut(s)	473
ScrFI	CCNGG	2 cut(s)	593, 643
SfaNI	GCATC	2 cut(s)	367, 578
SfuI	TTCGAA	1 cut(s)	581
SinI	GGWCC	2 cut(s)	136, 237
SmlI	CTYRAG	1 cut(s)	392
SmoI	CTYRAG	1 cut(s)	392
SnaBI	TACGTA	1 cut(s)	476
Sse9I	AATT	8 cut(s)	16, 45, 219, 293, 425, 454, 459, 624
SsiI	CCGC	2 cut(s)	27, 468
SspI	AATATT	1 cut(s)	248
SspMI	CTAG	2 cut(s)	495, 685
StyD4I	CCNGG	2 cut(s)	591, 641
StyI	CCWWGG	1 cut(s)	233
TaaI	ACNGT	1 cut(s)	190
TaiI	ACGT	1 cut(s)	478
TaqI	TCGA	5 cut(s)	147, 158, 243, 581, 648
TasI	AATT	8 cut(s)	16, 45, 219, 293, 425, 454, 459, 624
Tru1I	TTAA	2 cut(s)	387, 458
Tru9I	TTAA	2 cut(s)	387, 458
TseI	GCWGC	2 cut(s)	275, 324
TspDTI	ATGAA	2 cut(s)	306, 567
VpaK11BI	GGWCC	2 cut(s)	136, 237
XapI	RAATTY	3 cut(s)	16, 293, 454
XcmI	CCANNNNNNNNNTGG	1 cut(s)	85
XspI	CTAG	2 cut(s)	495, 685

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