Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0007924

Physical Location & Seq

Genomic Coordinates Reverse (-)

46475472 .. 46476457

Gene Structure 986 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00319000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 900 bp

ATGGCGTCGGCGTCGGCGTCGGCGTCGTCTTCGGCTCTCTCAAGGCTGTCCCGACGGCGGACACTTCAATCCCTCCCACGCAAACAAGGACGGTGTGGCCTTAATCAAGATTTCTCCGAGGTTTCCGAAGCTTTGTCAAATGGGCGTGCCGTCGTTGCTCTTGAATCCACCATTATTTCCCACGGGATGCCGTATCCCAAGAATTTGGAGACCGCAAAGGAGGTTGAGGCAATTGTCGGGGCAAATGGGGCTGTTCCCGCCACCATTGCTATCTTGGATGGCACACCTTGCATAGAAGAACTAGAGAGGCTTGCCGATTGGGTCCAAGAACTCGAGAAGACAGCTCGAACGGACATTGCACATGTTGAATTGGAGGAGTACATCGACATGGCGAGCATAAAATGGACATATCTTCGATCTTACCGAGCTTGGAAGGACACCGTAGCCGTCATCTCCGCTGGTGTAAAATCAATTTTGGATATCCCAAGGACCCTCGAATATTTGGAAACACAGGGAGTTTGTGTAGCTGCTTACAAGACCAATGAATTTCCAGCATTTTTTCACGAAGCAAGTGGCTGCAAGGTGCCTTGCCGTGTAGATACCCACGATGATTGCGCTCGGCTTATAGATGCAAACCTTAAACTTGAGCTTGGGACTGGAATGCTGATTGCTGTTCCAATTTCCAAAAGAACACTCGGCTTCGGAAATTTAATTGAGTCTCGCAATACGACAGCTCTTAGAGAAGCTAGGGATAAGAACATAACGGGCAATGCCGCTACTCCATTCTTGCTTGCAAGAGTAAATGAACTAACCGGAGGAGCATCTTTGGCTTCGAACATTGCCCCGGTGAAGAATAATGCACTTGTTGGTTCTAAAATTGTTGTAGCACTTTCCCATTAG

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

299

Amino Acids

32.22

Weight (kDa)

6.54

Isoelectric Point (pI)

33.85

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
Indigoidine_A	PF04227	40 - 122	8.8e-27	Indigoidine synthase A like protein
Indigoidine_A	PF04227	146 - 295	1.9e-49	Indigoidine synthase A like protein

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

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)	583
AciI	CCGC	5 cut(s)	58, 213, 258, 456, 774
AcsI	RAATTY	3 cut(s)	202, 545, 706
AcyI	GRCGYC	4 cut(s)	5, 11, 17, 23
AfaI	GTAC	1 cut(s)	380
AfiI	CCNNNNNNNGG	1 cut(s)	57
AflIII	ACRYGT	1 cut(s)	361
AgsI	TTSAA	3 cut(s)	68, 164, 368
AluBI	AGCT	7 cut(s)	131, 344, 428, 527, 649, 734, 746
AluI	AGCT	7 cut(s)	131, 344, 428, 527, 649, 734, 746
Alw26I	GTCTC	2 cut(s)	203, 723
Ama87I	CYCGRG	1 cut(s)	332
AoxI	GGCC	1 cut(s)	97
ApeKI	GCWGC	2 cut(s)	527, 576
ApoI	RAATTY	3 cut(s)	202, 545, 706
AspLEI	GCGC	1 cut(s)	617
AspS9I	GGNCC	2 cut(s)	322, 489
AsuC2I	CCSGG	1 cut(s)	845
AsuHPI	GGTGA	1 cut(s)	859
AsuII	TTCGAA	1 cut(s)	833
AvaI	CYCGRG	1 cut(s)	332
AvaII	GGWCC	2 cut(s)	322, 489
BanI	GGYRCC	1 cut(s)	583
BbsI	GAAGAC	2 cut(s)	21, 344
BbvI	GCAGC	2 cut(s)	514, 563
BccI	CCATC	1 cut(s)	272
BceAI	ACGGC	5 cut(s)	71, 134, 175, 431, 576
BciVI	GTATCC	1 cut(s)	204
BcnI	CCSGG	1 cut(s)	845
BcoDI	GTCTC	2 cut(s)	203, 723
BfaI	CTAG	2 cut(s)	302, 747
BfuI	GTATCC	1 cut(s)	204
BisI	GCNGC	3 cut(s)	528, 577, 774
BlsI	GCNGC	3 cut(s)	529, 578, 775
Bme1390I	CCNGG	1 cut(s)	845
Bme18I	GGWCC	2 cut(s)	322, 489
BmeT110I	CYCGRG	1 cut(s)	332
BmgT120I	GGNCC	2 cut(s)	322, 489
BmiI	GGNNCC	3 cut(s)	323, 491, 585
BmrFI	CCNGG	1 cut(s)	845
BmsI	GCATC	3 cut(s)	177, 619, 830
BpiI	GAAGAC	2 cut(s)	21, 344
Bpu14I	TTCGAA	1 cut(s)	833
BpuEI	CTTGAG	2 cut(s)	25, 665
BpuMI	CCSGG	1 cut(s)	845
BsaHI	GRCGYC	4 cut(s)	5, 11, 17, 23
BsaI	GGTCTC	1 cut(s)	203
BsaJI	CCNNGG	4 cut(s)	117, 181, 485, 843
BsaWI	WCCGGW	1 cut(s)	812
BsaXI	ACNNNNNCTCC	2 cut(s)	507, 537
Bsc4I	CCNNNNNNNGG	1 cut(s)	57
Bse1I	ACTGG	1 cut(s)	661
Bse3DI	GCAATG	4 cut(s)	264, 354, 775, 837
BseDI	CCNNGG	4 cut(s)	117, 181, 485, 843
BseGI	GGATG	2 cut(s)	192, 283
BseLI	CCNNNNNNNGG	1 cut(s)	57
BseMI	GCAATG	4 cut(s)	264, 354, 775, 837
BseNI	ACTGG	1 cut(s)	661
BseRI	GAGGAG	2 cut(s)	389, 831
BseXI	GCAGC	2 cut(s)	514, 563
BshFI	GGCC	1 cut(s)	99
BshNI	GGYRCC	1 cut(s)	583
BsiHKCI	CYCGRG	1 cut(s)	332
BsiSI	CCGG	2 cut(s)	813, 845
BslFI	GGGAC	2 cut(s)	34, 667
BslI	CCNNNNNNNGG	1 cut(s)	57
BsmAI	GTCTC	2 cut(s)	203, 723
BsmFI	GGGAC	2 cut(s)	34, 667
BsmI	GAATGC	1 cut(s)	666
BsnI	GGCC	1 cut(s)	99
Bso31I	GGTCTC	1 cut(s)	203
BsoBI	CYCGRG	1 cut(s)	332
Bsp119I	TTCGAA	1 cut(s)	833
Bsp143I	GATC	1 cut(s)	416
BspACI	CCGC	5 cut(s)	58, 213, 258, 456, 774
BspANI	GGCC	1 cut(s)	99
BspLI	GGNNCC	3 cut(s)	323, 491, 585
BspT104I	TTCGAA	1 cut(s)	833
BspT107I	GGYRCC	1 cut(s)	583
BspTNI	GGTCTC	1 cut(s)	203
BsrDI	GCAATG	4 cut(s)	264, 354, 775, 837
BsrI	ACTGG	1 cut(s)	661
BssECI	CCNNGG	4 cut(s)	117, 181, 485, 843
BssMI	GATC	1 cut(s)	416
BssNI	GRCGYC	4 cut(s)	5, 11, 17, 23
BssT1I	CCWWGG	1 cut(s)	485
Bst4CI	ACNGT	2 cut(s)	93, 442
BstACI	GRCGYC	4 cut(s)	5, 11, 17, 23
BstAPI	GCANNNNNTGC	1 cut(s)	288
BstBI	TTCGAA	1 cut(s)	833
BstC8I	GCNNGC	4 cut(s)	147, 312, 394, 792
BstDEI	CTNAG	1 cut(s)	737
BstDSI	CCRYGG	1 cut(s)	181
BstF5I	GGATG	2 cut(s)	192, 283
BstHHI	GCGC	1 cut(s)	617
BstKTI	GATC	1 cut(s)	419
BstMAI	GTCTC	2 cut(s)	203, 723
BstMBI	GATC	1 cut(s)	416
BstMWI	GCNNNNNNNGC	6 cut(s)	155, 248, 257, 266, 288, 827
BstNSI	RCATGY	1 cut(s)	365
BstSCI	CCNGG	1 cut(s)	843
BstV1I	GCAGC	2 cut(s)	514, 563
BstV2I	GAAGAC	2 cut(s)	21, 344
BstXI	CCANNNNNNTGG	1 cut(s)	205
BsuI	GTATCC	1 cut(s)	204
BsuRI	GGCC	1 cut(s)	99
BtgI	CCRYGG	1 cut(s)	181
BtsCI	GGATG	2 cut(s)	192, 283
Cac8I	GCNNGC	4 cut(s)	147, 312, 394, 792
CfoI	GCGC	1 cut(s)	617
Cfr13I	GGNCC	2 cut(s)	322, 489
CseI	GACGC	2 cut(s)	6, 12
Csp6I	GTAC	1 cut(s)	379
CspCI	CAANNNNNGTGG	2 cut(s)	593, 628
CviAII	CATG	2 cut(s)	362, 388
CviQI	GTAC	1 cut(s)	379
DdeI	CTNAG	1 cut(s)	737
DpnI	GATC	1 cut(s)	418
DpnII	GATC	1 cut(s)	416
EciI	GGCGGA	1 cut(s)	73
Eco130I	CCWWGG	1 cut(s)	485
Eco31I	GGTCTC	1 cut(s)	203
Eco32I	GATATC	1 cut(s)	481
Eco47I	GGWCC	2 cut(s)	322, 489
Eco88I	CYCGRG	1 cut(s)	332
EcoO109I	RGGNCCY	1 cut(s)	489
EcoRV	GATATC	1 cut(s)	481
EcoT14I	CCWWGG	1 cut(s)	485
ErhI	CCWWGG	1 cut(s)	485
FaeI	CATG	2 cut(s)	365, 391
FaiI	YATR	7 cut(s)	293, 363, 389, 398, 409, 626, 761
FaqI	GGGAC	2 cut(s)	34, 667
FatI	CATG	2 cut(s)	361, 387
FauI	CCCGC	1 cut(s)	265
Fnu4HI	GCNGC	3 cut(s)	528, 577, 774
FokI	GGATG	2 cut(s)	199, 290
Fsp4HI	GCNGC	3 cut(s)	528, 577, 774
FspBI	CTAG	2 cut(s)	302, 747
GlaI	GCGC	1 cut(s)	616
GluI	GCNGC	3 cut(s)	528, 577, 774
HaeIII	GGCC	1 cut(s)	99
HapII	CCGG	2 cut(s)	813, 845
HgaI	GACGC	2 cut(s)	6, 12
HhaI	GCGC	1 cut(s)	617
Hin1I	GRCGYC	4 cut(s)	5, 11, 17, 23
Hin1II	CATG	2 cut(s)	365, 391
Hin6I	GCGC	1 cut(s)	615
HinP1I	GCGC	1 cut(s)	615
HindIII	AAGCTT	1 cut(s)	129
HinfI	GANTC	2 cut(s)	164, 716
HpaII	CCGG	2 cut(s)	813, 845
HphI	GGTGA	1 cut(s)	859
Hpy188I	TCNGA	3 cut(s)	118, 127, 704
Hpy188III	TCNNGA	5 cut(s)	51, 107, 161, 334, 563
Hpy99I	CGWCG	6 cut(s)	10, 16, 22, 28, 57, 155
HpyAV	CCTTC	1 cut(s)	427
HpyCH4III	ACNGT	2 cut(s)	93, 442
HpyCH4V	TGCA	6 cut(s)	291, 359, 579, 632, 794, 860
HpyF10VI	GCNNNNNNNGC	6 cut(s)	155, 248, 257, 266, 288, 827
HpyF3I	CTNAG	1 cut(s)	737
Hsp92I	GRCGYC	4 cut(s)	5, 11, 17, 23
Hsp92II	CATG	2 cut(s)	365, 391
HspAI	GCGC	1 cut(s)	615
Kzo9I	GATC	1 cut(s)	416
LmnI	GCTCC	1 cut(s)	818
LpnPI	CCDG	6 cut(s)	444, 497, 564, 642, 826, 858
Lsp1109I	GCAGC	2 cut(s)	514, 563
LweI	GCATC	3 cut(s)	177, 619, 830
MaeI	CTAG	2 cut(s)	302, 747
MalI	GATC	1 cut(s)	418
MboI	GATC	1 cut(s)	416
MboII	GAAGA	5 cut(s)	21, 308, 349, 404, 862
MfeI	CAATTG	1 cut(s)	231
MluCI	AATT	9 cut(s)	202, 231, 368, 471, 545, 678, 706, 711, 876
MlyI	GAGTC	1 cut(s)	725
MnlI	CCTC	8 cut(s)	83, 112, 214, 220, 300, 367, 503, 809
MseI	TTAA	3 cut(s)	102, 639, 710
MslI	CAYNNNNRTG	1 cut(s)	386
MspA1I	CMGCKG	1 cut(s)	458
MspI	CCGG	2 cut(s)	813, 845
MspR9I	CCNGG	1 cut(s)	845
MunI	CAATTG	1 cut(s)	231
Mva1269I	GAATGC	1 cut(s)	666
MwoI	GCNNNNNNNGC	6 cut(s)	155, 248, 257, 266, 288, 827
NciI	CCSGG	1 cut(s)	845
NdeII	GATC	1 cut(s)	416
NlaIII	CATG	2 cut(s)	365, 391
NlaIV	GGNNCC	3 cut(s)	323, 491, 585
NmeAIII	GCCGAG	2 cut(s)	598, 675
NspI	RCATGY	1 cut(s)	365
NspV	TTCGAA	1 cut(s)	833
PaeR7I	CTCGAG	1 cut(s)	332
PciI	ACATGT	1 cut(s)	361
PcsI	WCGNNNNNNNCGW	3 cut(s)	14, 20, 421
PctI	GAATGC	1 cut(s)	666
PfeI	GAWTC	1 cut(s)	164
PkrI	GCNGC	3 cut(s)	529, 578, 775
PleI	GAGTC	1 cut(s)	724
PpsI	GAGTC	1 cut(s)	724
PpuMI	RGGWCCY	1 cut(s)	489
PscI	ACATGT	1 cut(s)	361
Psp5II	RGGWCCY	1 cut(s)	489
PspN4I	GGNNCC	3 cut(s)	323, 491, 585
PspPI	GGNCC	2 cut(s)	322, 489
PspPPI	RGGWCCY	1 cut(s)	489
RsaI	GTAC	1 cut(s)	380
RsaNI	GTAC	1 cut(s)	379
RseI	CAYNNNNRTG	1 cut(s)	386
SaqAI	TTAA	3 cut(s)	102, 639, 710
SatI	GCNGC	3 cut(s)	528, 577, 774
Sau3AI	GATC	1 cut(s)	416
Sau96I	GGNCC	2 cut(s)	322, 489
SchI	GAGTC	1 cut(s)	725
ScrFI	CCNGG	1 cut(s)	845
SfaNI	GCATC	3 cut(s)	177, 619, 830
Sfr274I	CTCGAG	1 cut(s)	332
SfuI	TTCGAA	1 cut(s)	833
SinI	GGWCC	2 cut(s)	322, 489
SlaI	CTCGAG	1 cut(s)	332
SmiMI	CAYNNNNRTG	1 cut(s)	386
SmlI	CTYRAG	3 cut(s)	40, 332, 644
SmoI	CTYRAG	3 cut(s)	40, 332, 644
Sse9I	AATT	9 cut(s)	202, 231, 368, 471, 545, 678, 706, 711, 876
SsiI	CCGC	5 cut(s)	58, 213, 258, 456, 774
SspI	AATATT	1 cut(s)	500
SspMI	CTAG	2 cut(s)	302, 747
StyD4I	CCNGG	1 cut(s)	843
StyI	CCWWGG	1 cut(s)	485
TaaI	ACNGT	2 cut(s)	93, 442
TaqI	TCGA	6 cut(s)	333, 346, 384, 415, 495, 833
TasI	AATT	9 cut(s)	202, 231, 368, 471, 545, 678, 706, 711, 876
TatI	WGTACW	1 cut(s)	378
TauI	GCSGC	1 cut(s)	776
TfiI	GAWTC	1 cut(s)	164
Tru1I	TTAA	3 cut(s)	102, 639, 710
Tru9I	TTAA	3 cut(s)	102, 639, 710
TseI	GCWGC	2 cut(s)	527, 576
TspDTI	ATGAA	2 cut(s)	558, 819
TspGWI	ACGGA	1 cut(s)	365
VpaK11BI	GGWCC	2 cut(s)	322, 489
XapI	RAATTY	3 cut(s)	202, 545, 706
XceI	RCATGY	1 cut(s)	365
XcmI	CCANNNNNNNNNTGG	1 cut(s)	271
XhoI	CTCGAG	1 cut(s)	332
XspI	CTAG	2 cut(s)	302, 747

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