Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000004

Orthogroup ID

OG0011863

Physical Location & Seq

Genomic Coordinates Forward (+)

16620220 .. 16623086

Gene Structure 2867 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_4G00296560.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 693 bp

ATGCAAATTGACTTTTCCGGGGCTACTTCAAGGCCTTCGGTGGTTTCCCGACCCATTGTTGTTGAATCTGAGAATTCAGATGCTGAAGCTCCATGCAAGGAAGAGCTGCCAGGTACAGCTGAAGAGAGGAGGCCACGGAAACGGGGTAGGAAGCCAGCAAATGGAAGAGAAGAGCCCCTCAATCATGTTGAAGCAGAAAGGCAGCGTCGGGAGAAGCTGAACCAGCGCTTCTATGCTTTACGAGCTGTTGTGCCAAACATATCCAAGATGGACAAAGCATCTTTGTTGGGAGATGCCATTGATTATATCAATGAGCTTCAGGCAAAGCTTAAGGTCATGGAATCTGAGAGGGAGAGTGTAGGAGGCACTTCAAGAGATACCTCAGCTTTGGTAGCTAACCCAAGTTCAGAAAATCAGATCCGGGCTCTCCATGTTGACATTCAAGCTGTGCATGATGAGGTTGTTGTAAGCGTGAGCTGCCCTTTAGATTCACACCCTGCATCAAGAATCATCCAAGCATTTAAAGAAGCACAAATCAGTGTTGTTGAGTCGAAATTCACCACAGCAAACGATTCTGTGTTTCATACATTTGTTGTCAAGTCTCAAGGATCTGAACAATTGACGAAGGAGAAGTTGATTGCAGCATTTTCCAGGGAATCCAACTCCTTACAATCATTGTCATCAGTTGGTTAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0001067 GO:0001101 GO:0003674 GO:0003676 GO:0003677 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0006355 GO:0006950 GO:0008150 GO:0009611 GO:0009719 GO:0009725 GO:0009737 GO:0009889 GO:0009892 GO:0010033 GO:0010468 GO:0010556 GO:0010605 GO:0010629 GO:0019219 GO:0019222 GO:0031323 GO:0031326 GO:0033993 GO:0042221 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044212 GO:0044424 GO:0044464 GO:0048519 GO:0050789 GO:0050794 GO:0050896 GO:0051171 GO:0051252 GO:0060255 GO:0065007 GO:0080090 GO:0097159 GO:0097305 GO:0140110 GO:1901363 GO:1901700 GO:1903506 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HLH bHLH-MYC_N

Protein Analysis

230

Amino Acids

25.34

Weight (kDa)

6.25

Isoelectric Point (pI)

51.68

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	61 - 107	2e-13	Helix-loop-helix DNA-binding domain
bHLH_SAC51	PF23173	65 - 115	5.2e-06	Transcription factor SAC51 bHLH domain
bHLH-TF_ACT-like_plant	PF22754	145 - 216	6.2e-08	Plant bHLH transcription factor, ACT-like domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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: OG0011863)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G01260 AT1G01260 AT1G01260
fragaria_vesca	FvH4_7g16800
malus_domestica	MD01G1082700.v1.1 MD07G1151000.v1.1
prunus_persica	Prupe.2G190100_v2.0.a1 Prupe.2G190100_v2.0.a1
pyrus_communis	pycom07g14930
rosa_chinensis	RchiOBHm_Chr1g0360001
rosa_laevigata	RLG00000027841
rosa_multiflora	Rmu_ssc0000368.1_g000016
rosa_roxburghii	Rroxscaffold_4G00296560
rosa_rugosa	Rorug01G0274500
rosa_samantha	Rh1AG288300 Rh1BG253800 Rh1CG271300 Rh1DG282900
rosa_wichuraiana	Rw1G025560

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccB7I	CCANNNNNTGG	1 cut(s)	161
AclWI	GGATC	2 cut(s)	412, 616
AcsI	RAATTY	2 cut(s)	73, 554
AcuI	CTGAAG	3 cut(s)	105, 141, 302
AfaI	GTAC	1 cut(s)	115
AfeI	AGCGCT	1 cut(s)	227
AfiI	CCNNNNNNNGG	1 cut(s)	161
AflII	CTTAAG	1 cut(s)	329
AgsI	TTSAA	5 cut(s)	30, 65, 191, 372, 443
AjnI	CCWGG	2 cut(s)	109, 650
Alw26I	GTCTC	1 cut(s)	606
AlwI	GGATC	2 cut(s)	412, 616
AlwNI	CAGNNNCTG	1 cut(s)	83
Aor51HI	AGCGCT	1 cut(s)	227
AoxI	GGCC	2 cut(s)	32, 131
ApeKI	GCWGC	4 cut(s)	106, 202, 477, 641
ApoI	RAATTY	2 cut(s)	73, 554
AspLEI	GCGC	1 cut(s)	228
AsuC2I	CCSGG	2 cut(s)	19, 422
AsuHPI	GGTGA	1 cut(s)	550
BanII	GRGCYC	2 cut(s)	177, 427
BbvCI	CCTCAGC	1 cut(s)	382
BbvI	GCAGC	4 cut(s)	93, 214, 464, 653
BccI	CCATC	1 cut(s)	262
BciT130I	CCWGG	2 cut(s)	111, 652
BcnI	CCSGG	2 cut(s)	19, 422
BcoDI	GTCTC	1 cut(s)	606
BfoI	RGCGCY	1 cut(s)	229
BfrI	CTTAAG	1 cut(s)	329
BisI	GCNGC	4 cut(s)	107, 203, 478, 642
BlsI	GCNGC	4 cut(s)	108, 204, 479, 643
Bme1390I	CCNGG	4 cut(s)	19, 111, 422, 652
BmrFI	CCNGG	4 cut(s)	19, 111, 422, 652
BmsI	GCATC	4 cut(s)	70, 283, 287, 509
Bpu10I	CCTNAGC	1 cut(s)	382
BpuEI	CTTGAG	1 cut(s)	588
BpuMI	CCSGG	2 cut(s)	19, 422
BsaJI	CCNNGG	3 cut(s)	18, 134, 651
Bsc4I	CCNNNNNNNGG	1 cut(s)	161
BseBI	CCWGG	2 cut(s)	111, 652
BseDI	CCNNGG	3 cut(s)	18, 134, 651
BseGI	GGATG	1 cut(s)	510
BseLI	CCNNNNNNNGG	1 cut(s)	161
BseMII	CTCAG	3 cut(s)	60, 336, 396
BseRI	GAGGAG	1 cut(s)	142
BseXI	GCAGC	4 cut(s)	93, 214, 464, 653
BshFI	GGCC	2 cut(s)	34, 133
BsiSI	CCGG	2 cut(s)	18, 421
BslI	CCNNNNNNNGG	1 cut(s)	161
BsmAI	GTCTC	1 cut(s)	606
BsnI	GGCC	2 cut(s)	34, 133
Bsp1286I	GDGCHC	2 cut(s)	177, 427
Bsp143I	GATC	2 cut(s)	417, 608
BspANI	GGCC	2 cut(s)	34, 133
BspCNI	CTCAG	3 cut(s)	61, 337, 395
BspPI	GGATC	2 cut(s)	412, 616
BspQI	GCTCTTC	2 cut(s)	96, 165
BspTI	CTTAAG	1 cut(s)	329
BssECI	CCNNGG	3 cut(s)	18, 134, 651
BssMI	GATC	2 cut(s)	417, 608
Bst2UI	CCWGG	2 cut(s)	111, 652
Bst6I	CTCTTC	4 cut(s)	96, 117, 160, 165
BstAFI	CTTAAG	1 cut(s)	329
BstC8I	GCNNGC	1 cut(s)	156
BstDEI	CTNAG	3 cut(s)	69, 345, 382
BstDSI	CCRYGG	1 cut(s)	134
BstF5I	GGATG	1 cut(s)	510
BstH2I	RGCGCY	1 cut(s)	229
BstHHI	GCGC	1 cut(s)	228
BstKTI	GATC	2 cut(s)	420, 611
BstMAI	GTCTC	1 cut(s)	606
BstMBI	GATC	2 cut(s)	417, 608
BstMWI	GCNNNNNNNGC	4 cut(s)	223, 242, 392, 477
BstNI	CCWGG	2 cut(s)	111, 652
BstSCI	CCNGG	4 cut(s)	17, 109, 420, 650
BstV1I	GCAGC	4 cut(s)	93, 214, 464, 653
BstX2I	RGATCY	2 cut(s)	417, 608
BstYI	RGATCY	2 cut(s)	417, 608
BsuRI	GGCC	2 cut(s)	34, 133
BtgI	CCRYGG	1 cut(s)	134
BtsCI	GGATG	1 cut(s)	510
BtsIMutI	CAGTG	1 cut(s)	544
Cac8I	GCNNGC	1 cut(s)	156
CaiI	CAGNNNCTG	1 cut(s)	83
CfoI	GCGC	1 cut(s)	228
CseI	GACGC	1 cut(s)	194
Csp6I	GTAC	1 cut(s)	114
CviAII	CATG	5 cut(s)	93, 185, 337, 431, 452
CviQI	GTAC	1 cut(s)	114
DdeI	CTNAG	3 cut(s)	69, 345, 382
DpnI	GATC	2 cut(s)	419, 610
DpnII	GATC	2 cut(s)	417, 608
DraI	TTTAAA	1 cut(s)	523
Eam1104I	CTCTTC	4 cut(s)	96, 117, 160, 165
EarI	CTCTTC	4 cut(s)	96, 117, 160, 165
Eco147I	AGGCCT	1 cut(s)	34
Eco24I	GRGCYC	2 cut(s)	177, 427
Eco47III	AGCGCT	1 cut(s)	227
Eco57I	CTGAAG	3 cut(s)	105, 141, 302
EcoRI	GAATTC	1 cut(s)	73
EcoRII	CCWGG	2 cut(s)	109, 650
EcoT38I	GRGCYC	2 cut(s)	177, 427
FaeI	CATG	5 cut(s)	96, 188, 340, 434, 455
FaiI	YATR	9 cut(s)	94, 186, 234, 260, 306, 338, 432, 453, 585
FatI	CATG	5 cut(s)	92, 184, 336, 430, 451
Fnu4HI	GCNGC	4 cut(s)	107, 203, 478, 642
FokI	GGATG	1 cut(s)	497
FriOI	GRGCYC	2 cut(s)	177, 427
Fsp4HI	GCNGC	4 cut(s)	107, 203, 478, 642
GlaI	GCGC	1 cut(s)	227
GluI	GCNGC	4 cut(s)	107, 203, 478, 642
HaeII	RGCGCY	1 cut(s)	229
HaeIII	GGCC	2 cut(s)	34, 133
HapII	CCGG	2 cut(s)	18, 421
HgaI	GACGC	1 cut(s)	194
HhaI	GCGC	1 cut(s)	228
Hin1II	CATG	5 cut(s)	96, 188, 340, 434, 455
Hin6I	GCGC	1 cut(s)	226
HinP1I	GCGC	1 cut(s)	226
HincII	GTYRAC	1 cut(s)	436
HindII	GTYRAC	1 cut(s)	436
HindIII	AAGCTT	1 cut(s)	326
HinfI	GANTC	7 cut(s)	65, 341, 488, 507, 548, 572, 656
HpaII	CCGG	2 cut(s)	18, 421
HphI	GGTGA	1 cut(s)	550
Hpy166II	GTNNAC	1 cut(s)	436
Hpy188I	TCNGA	6 cut(s)	70, 79, 346, 409, 417, 613
Hpy188III	TCNNGA	4 cut(s)	48, 209, 372, 504
Hpy8I	GTNNAC	1 cut(s)	436
Hpy99I	CGWCG	1 cut(s)	210
HpyAV	CCTTC	2 cut(s)	45, 619
HpyCH4V	TGCA	5 cut(s)	4, 96, 451, 500, 641
HpyF10VI	GCNNNNNNNGC	4 cut(s)	223, 242, 392, 477
HpyF3I	CTNAG	3 cut(s)	69, 345, 382
Hsp92II	CATG	5 cut(s)	96, 188, 340, 434, 455
HspAI	GCGC	1 cut(s)	226
Kzo9I	GATC	2 cut(s)	417, 608
LguI	GCTCTTC	2 cut(s)	96, 165
LmnI	GCTCC	1 cut(s)	94
Lsp1109I	GCAGC	4 cut(s)	93, 214, 464, 653
LweI	GCATC	4 cut(s)	70, 283, 287, 509
MalI	GATC	2 cut(s)	419, 610
MboI	GATC	2 cut(s)	417, 608
MboII	GAAGA	4 cut(s)	113, 134, 177, 182
MfeI	CAATTG	1 cut(s)	617
MflI	RGATCY	2 cut(s)	417, 608
MhlI	GDGCHC	2 cut(s)	177, 427
MluCI	AATT	4 cut(s)	6, 73, 554, 617
MlyI	GAGTC	1 cut(s)	557
MmeI	TCCRAC	1 cut(s)	684
MnlI	CCTC	7 cut(s)	120, 123, 188, 342, 356, 391, 451
MseI	TTAA	2 cut(s)	330, 522
MspA1I	CMGCKG	1 cut(s)	119
MspCI	CTTAAG	1 cut(s)	329
MspI	CCGG	2 cut(s)	18, 421
MspR9I	CCNGG	4 cut(s)	19, 111, 422, 652
MunI	CAATTG	1 cut(s)	617
MvaI	CCWGG	2 cut(s)	111, 652
MwoI	GCNNNNNNNGC	4 cut(s)	223, 242, 392, 477
NciI	CCSGG	2 cut(s)	19, 422
NdeII	GATC	2 cut(s)	417, 608
NlaIII	CATG	5 cut(s)	96, 188, 340, 434, 455
PceI	AGGCCT	1 cut(s)	34
PciSI	GCTCTTC	2 cut(s)	96, 165
PfeI	GAWTC	6 cut(s)	65, 341, 488, 507, 572, 656
PflMI	CCANNNNNTGG	1 cut(s)	161
PkrI	GCNGC	4 cut(s)	108, 204, 479, 643
PleI	GAGTC	1 cut(s)	556
PpsI	GAGTC	1 cut(s)	556
Psp6I	CCWGG	2 cut(s)	109, 650
PspGI	CCWGG	2 cut(s)	109, 650
PstNI	CAGNNNCTG	1 cut(s)	83
PsuI	RGATCY	2 cut(s)	417, 608
PvuII	CAGCTG	1 cut(s)	119
RsaI	GTAC	1 cut(s)	115
RsaNI	GTAC	1 cut(s)	114
SapI	GCTCTTC	2 cut(s)	96, 165
SaqAI	TTAA	2 cut(s)	330, 522
SatI	GCNGC	4 cut(s)	107, 203, 478, 642
Sau3AI	GATC	2 cut(s)	417, 608
SchI	GAGTC	1 cut(s)	557
ScrFI	CCNGG	4 cut(s)	19, 111, 422, 652
SduI	GDGCHC	2 cut(s)	177, 427
SfaNI	GCATC	4 cut(s)	70, 283, 287, 509
SmlI	CTYRAG	2 cut(s)	329, 603
SmoI	CTYRAG	2 cut(s)	329, 603
Sse9I	AATT	4 cut(s)	6, 73, 554, 617
SseBI	AGGCCT	1 cut(s)	34
StuI	AGGCCT	1 cut(s)	34
StyD4I	CCNGG	4 cut(s)	17, 109, 420, 650
TaqI	TCGA	1 cut(s)	551
TasI	AATT	4 cut(s)	6, 73, 554, 617
TfiI	GAWTC	6 cut(s)	65, 341, 488, 507, 572, 656
Tru1I	TTAA	2 cut(s)	330, 522
Tru9I	TTAA	2 cut(s)	330, 522
TscAI	CASTG	1 cut(s)	544
TseI	GCWGC	4 cut(s)	106, 202, 477, 641
TspDTI	ATGAA	1 cut(s)	572
TspGWI	ACGGA	1 cut(s)	151
TspRI	CASTG	1 cut(s)	544
Van91I	CCANNNNNTGG	1 cut(s)	161
Vha464I	CTTAAG	1 cut(s)	329
XapI	RAATTY	2 cut(s)	73, 554

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