Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000003

Orthogroup ID

OG0002347

Physical Location & Seq

Genomic Coordinates Reverse (-)

11740496 .. 11742303

Gene Structure 1808 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_3G00227590.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 1077 bp

ATGGAGCTCAATGAACAACATAGTTTTTTAGAGGAGCTGTTAGCTCTTAGAAGAGACAGTTCATGGGAAACCATTCCCCCCGAAATGAATGAGTTCTTGTCTAGTAGCACCTGGAGTAGTTTCGATTACTTCGATAATCAAAACCCACCACCATTTTTCCCCCAGTCTTCTTCCGGCCAAGAATTCTCACCTCCATTTGAACCAAACTTGAACAACTACCACAACAATACCACTTTCAATGAAGTGTACTATCCCGTAGGCTTTGGTACTGACGAACTGCTCTCAGCTCCACAGGTCACCACTGATTCGTCTTACAACACACTCGGTGATACGCCGCCGTTTCCTGTTCAGGAAGACAACAATCCATGGTCCATGCTCGAAGAAGAAGAGCTGAGTTTACTTGGAGATGAAATACACAACTTGGAGACTCAGGCTGCTGCTTGTAAAGTGGAGCCGACTCAGTCCTCCTCCTCCCCTGAAGCAGCTCCTGTCTTCAACATGGGTATGTGTGTAGAACTAGAAAGAAACAGCAGAACTAGCAAGAAGTTGCAGGGGCAGCCATCAAAGAATCTAATGGCTGAGAGAAGAAGAAGAAAGCGGTTAAATGACCGCCTTTCAATGCTAAGATCAATTGTTCCCAAGATAAGTAAGATGGACAGAACATCTATACTTGGAGACACCATAGATTACATGAAAGAACTCCTGGACAGAATCAACAACTTGCAGCATGAAATTGAAGAAGGTGGTTCAGATCAGTTGAATGTGATGAGACTTTTCAAGGATATGAAACCAAATGAAATGCTAGTGAGGAACTCACCCAAGTTTGATGTTCAAAGGAGGAATGCGGACACAAGGATTGAGATTTGCTGTGCAGGAAAGCCAGGGTTATTACTATCCACAGTTACTACCTTGGAAGCATTAGGCCTTGAGATTCAACAGTGTGTTATTAGCTGCTTTAATGATTTTGCAATGCAAGCTTCTTGTTCAGAGGGTTTGGATCAGAGAACACTAGTAACTTCTGAGGACATGAAGCAAGCGCTGTTTAGAAATGCAGGATATGGAGGAAGGTGTTTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

No ontology terms assigned.

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HLH

Protein Analysis

358

Amino Acids

40.6

Weight (kDa)

4.72

Isoelectric Point (pI)

66.48

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	192 - 234	7.3e-10	Helix-loop-helix DNA-binding domain
bHLH-TF_ACT-like_plant	PF22754	280 - 349	1.2e-07	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: OG0002347)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G10570 AT5G65640 AT5G65640
fragaria_vesca	FvH4_1g18930 FvH4_1g18930 FvH4_1g18930 FvH4_5g33810 FvH4_5g33810 FvH4_5g33810
malus_domestica	MD01G1045500.v1.1 MD08G1207700.v1.1 MD15G1306400.v1.1 MD15G1392100.v1.1
prunus_persica	Prupe.1G540400_v2.0.a1 Prupe.6G210200_v2.0.a1
pyrus_communis	pycom01g07160 pycom08g17980 pycom15g27080 pycom15g35280
rosa_chinensis	RchiOBHm_Chr2g0109941 RchiOBHm_Chr7g0233161
rosa_laevigata	RLG00000001291 RLG00000017771
rosa_multiflora	Rmu_sc0002061.1_g000003 Rmu_sc0005173.1_g000020
rosa_roxburghii	Rroxscaffold_2G00133860 Rroxscaffold_3G00227590
rosa_rugosa	Rorug02G0164000 Rorug02G0164100 Rorug07G0279100 Rorug07G0279100 Rorug07G0279200
rosa_samantha	Rh2AG216000 Rh2BG226000 Rh2CG218200 Rh2DG221500 Rh7AG435000 Rh7BG407400 Rh7CG454000 Rh7DG422700
rosa_wichuraiana	Rw2G016680 Rw7G035780

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AciI	CCGC	4 cut(s)	335, 598, 610, 845
AclWI	GGATC	1 cut(s)	1005
AcoI	YGGCCR	1 cut(s)	175
AcsI	RAATTY	1 cut(s)	182
AcuI	CTGAAG	1 cut(s)	498
AdeI	CACNNNGTG	1 cut(s)	326
AfaI	GTAC	2 cut(s)	248, 268
AfeI	AGCGCT	1 cut(s)	1038
AhlI	ACTAGT	1 cut(s)	1009
AjnI	CCWGG	3 cut(s)	110, 702, 880
AluBI	AGCT	8 cut(s)	7, 37, 44, 287, 391, 485, 951, 977
AluI	AGCT	8 cut(s)	7, 37, 44, 287, 391, 485, 951, 977
Alw21I	GWGCWC	1 cut(s)	9
Alw26I	GTCTC	4 cut(s)	48, 419, 669, 763
AlwI	GGATC	1 cut(s)	1005
AlwNI	CAGNNNCTG	1 cut(s)	488
Aor51HI	AGCGCT	1 cut(s)	1038
AoxI	GGCC	2 cut(s)	175, 922
ApeKI	GCWGC	6 cut(s)	434, 437, 482, 556, 724, 951
ApoI	RAATTY	1 cut(s)	182
Asp700I	GAANNNNTTC	2 cut(s)	72, 92
AspLEI	GCGC	1 cut(s)	1039
AspS9I	GGNCC	1 cut(s)	369
AsuHPI	GGTGA	4 cut(s)	180, 289, 338, 807
AvaII	GGWCC	1 cut(s)	369
BanII	GRGCYC	1 cut(s)	9
BbsI	GAAGAC	3 cut(s)	159, 360, 484
Bbv12I	GWGCWC	1 cut(s)	9
BbvI	GCAGC	6 cut(s)	421, 424, 494, 568, 736, 938
BccI	CCATC	2 cut(s)	568, 646
BceAI	ACGGC	1 cut(s)	322
BciT130I	CCWGG	3 cut(s)	112, 704, 882
BcoDI	GTCTC	4 cut(s)	48, 419, 669, 763
BcuI	ACTAGT	1 cut(s)	1009
BfaI	CTAG	5 cut(s)	102, 518, 537, 803, 1010
BfoI	RGCGCY	1 cut(s)	1040
BisI	GCNGC	7 cut(s)	335, 435, 438, 483, 557, 725, 952
BlsI	GCNGC	7 cut(s)	336, 436, 439, 484, 558, 726, 953
Bme1390I	CCNGG	3 cut(s)	112, 704, 882
Bme18I	GGWCC	1 cut(s)	369
BmgT120I	GGNCC	1 cut(s)	369
BmiI	GGNNCC	1 cut(s)	453
BmrFI	CCNGG	3 cut(s)	112, 704, 882
BmrI	ACTGGG	1 cut(s)	157
BmuI	ACTGGG	1 cut(s)	157
BpiI	GAAGAC	3 cut(s)	159, 360, 484
BpmI	CTGGAG	1 cut(s)	133
BpuEI	CTTGAG	1 cut(s)	947
BsaJI	CCNNGG	3 cut(s)	365, 881, 909
Bse1I	ACTGG	1 cut(s)	163
Bse3DI	GCAATG	1 cut(s)	975
BseBI	CCWGG	3 cut(s)	112, 704, 882
BseDI	CCNNGG	3 cut(s)	365, 881, 909
BseMI	GCAATG	1 cut(s)	975
BseMII	CTCAG	6 cut(s)	297, 383, 443, 473, 570, 1011
BseNI	ACTGG	1 cut(s)	163
BseRI	GAGGAG	3 cut(s)	47, 457, 460
BseXI	GCAGC	6 cut(s)	421, 424, 494, 568, 736, 938
BsgI	GTGCAG	1 cut(s)	891
BshFI	GGCC	2 cut(s)	177, 924
BsiHKAI	GWGCWC	1 cut(s)	9
BsiSI	CCGG	1 cut(s)	174
BsmAI	GTCTC	4 cut(s)	48, 419, 669, 763
BsmI	GAATGC	1 cut(s)	847
BsnI	GGCC	2 cut(s)	177, 924
Bsp1286I	GDGCHC	1 cut(s)	9
Bsp143I	GATC	3 cut(s)	626, 751, 997
Bsp19I	CCATGG	1 cut(s)	365
BspACI	CCGC	4 cut(s)	335, 598, 610, 845
BspANI	GGCC	2 cut(s)	177, 924
BspCNI	CTCAG	6 cut(s)	296, 384, 442, 472, 571, 1012
BspLI	GGNNCC	1 cut(s)	453
BspPI	GGATC	1 cut(s)	1005
BspQI	GCTCTTC	1 cut(s)	381
BsrDI	GCAATG	1 cut(s)	975
BsrI	ACTGG	1 cut(s)	163
BssECI	CCNNGG	3 cut(s)	365, 881, 909
BssMI	GATC	3 cut(s)	626, 751, 997
BssT1I	CCWWGG	2 cut(s)	365, 909
Bst2UI	CCWGG	3 cut(s)	112, 704, 882
Bst4CI	ACNGT	3 cut(s)	59, 901, 939
Bst6I	CTCTTC	2 cut(s)	46, 381
BstC8I	GCNNGC	2 cut(s)	975, 1035
BstDEI	CTNAG	8 cut(s)	47, 283, 392, 429, 459, 579, 623, 1020
BstDSI	CCRYGG	1 cut(s)	365
BstEII	GGTNACC	1 cut(s)	295
BstH2I	RGCGCY	1 cut(s)	1040
BstHHI	GCGC	1 cut(s)	1039
BstKTI	GATC	3 cut(s)	629, 754, 1000
BstMAI	GTCTC	4 cut(s)	48, 419, 669, 763
BstMBI	GATC	3 cut(s)	626, 751, 997
BstMWI	GCNNNNNNNGC	3 cut(s)	537, 556, 974
BstNI	CCWGG	3 cut(s)	112, 704, 882
BstPI	GGTNACC	1 cut(s)	295
BstSCI	CCNGG	3 cut(s)	110, 702, 880
BstV1I	GCAGC	6 cut(s)	421, 424, 494, 568, 736, 938
BstV2I	GAAGAC	3 cut(s)	159, 360, 484
BsuRI	GGCC	2 cut(s)	177, 924
BtgI	CCRYGG	1 cut(s)	365
BtsIMutI	CAGTG	2 cut(s)	300, 944
Cac8I	GCNNGC	2 cut(s)	975, 1035
CaiI	CAGNNNCTG	1 cut(s)	488
CfoI	GCGC	1 cut(s)	1039
Cfr13I	GGNCC	1 cut(s)	369
Csp6I	GTAC	2 cut(s)	247, 267
CviAII	CATG	7 cut(s)	63, 366, 373, 499, 691, 728, 1027
CviQI	GTAC	2 cut(s)	247, 267
DdeI	CTNAG	8 cut(s)	47, 283, 392, 429, 459, 579, 623, 1020
DpnI	GATC	3 cut(s)	628, 753, 999
DpnII	GATC	3 cut(s)	626, 751, 997
DraIII	CACNNNGTG	1 cut(s)	326
EaeI	YGGCCR	1 cut(s)	175
Eam1104I	CTCTTC	2 cut(s)	46, 381
EarI	CTCTTC	2 cut(s)	46, 381
Ecl136II	GAGCTC	1 cut(s)	7
Eco130I	CCWWGG	2 cut(s)	365, 909
Eco147I	AGGCCT	1 cut(s)	924
Eco24I	GRGCYC	1 cut(s)	9
Eco47I	GGWCC	1 cut(s)	369
Eco47III	AGCGCT	1 cut(s)	1038
Eco53kI	GAGCTC	1 cut(s)	7
Eco57I	CTGAAG	1 cut(s)	498
Eco91I	GGTNACC	1 cut(s)	295
EcoICRI	GAGCTC	1 cut(s)	7
EcoO65I	GGTNACC	1 cut(s)	295
EcoRI	GAATTC	1 cut(s)	182
EcoRII	CCWGG	3 cut(s)	110, 702, 880
EcoT14I	CCWWGG	2 cut(s)	365, 909
EcoT38I	GRGCYC	1 cut(s)	9
ErhI	CCWWGG	2 cut(s)	365, 909
FaeI	CATG	7 cut(s)	66, 369, 376, 502, 694, 731, 1030
FatI	CATG	7 cut(s)	62, 365, 372, 498, 690, 727, 1026
Fnu4HI	GCNGC	7 cut(s)	335, 435, 438, 483, 557, 725, 952
FriOI	GRGCYC	1 cut(s)	9
Fsp4HI	GCNGC	7 cut(s)	335, 435, 438, 483, 557, 725, 952
FspBI	CTAG	5 cut(s)	102, 518, 537, 803, 1010
GlaI	GCGC	1 cut(s)	1038
GluI	GCNGC	7 cut(s)	335, 435, 438, 483, 557, 725, 952
GsuI	CTGGAG	1 cut(s)	133
HaeII	RGCGCY	1 cut(s)	1040
HaeIII	GGCC	2 cut(s)	177, 924
HapII	CCGG	1 cut(s)	174
HhaI	GCGC	1 cut(s)	1039
Hin1II	CATG	7 cut(s)	66, 369, 376, 502, 694, 731, 1030
Hin6I	GCGC	1 cut(s)	1037
HinP1I	GCGC	1 cut(s)	1037
HindIII	AAGCTT	1 cut(s)	975
HinfI	GANTC	6 cut(s)	305, 427, 457, 568, 711, 931
HpaII	CCGG	1 cut(s)	174
HphI	GGTGA	4 cut(s)	180, 289, 338, 807
Hpy166II	GTNNAC	2 cut(s)	247, 398
Hpy188I	TCNGA	4 cut(s)	751, 988, 1002, 1021
Hpy188III	TCNNGA	1 cut(s)	350
Hpy8I	GTNNAC	2 cut(s)	247, 398
HpyAV	CCTTC	2 cut(s)	734, 1059
HpyCH4III	ACNGT	3 cut(s)	59, 901, 939
HpyCH4V	TGCA	6 cut(s)	550, 724, 872, 968, 973, 1052
HpyF10VI	GCNNNNNNNGC	3 cut(s)	537, 556, 974
HpyF3I	CTNAG	8 cut(s)	47, 283, 392, 429, 459, 579, 623, 1020
Hsp92II	CATG	7 cut(s)	66, 369, 376, 502, 694, 731, 1030
HspAI	GCGC	1 cut(s)	1037
Kzo9I	GATC	3 cut(s)	626, 751, 997
LguI	GCTCTTC	1 cut(s)	381
LmnI	GCTCC	5 cut(s)	4, 34, 292, 451, 490
Lsp1109I	GCAGC	6 cut(s)	421, 424, 494, 568, 736, 938
MaeI	CTAG	5 cut(s)	102, 518, 537, 803, 1010
MaeIII	GTNAC	3 cut(s)	295, 901, 1012
MalI	GATC	3 cut(s)	628, 753, 999
MboI	GATC	3 cut(s)	626, 751, 997
MfeI	CAATTG	1 cut(s)	630
MhlI	GDGCHC	1 cut(s)	9
MluCI	AATT	3 cut(s)	182, 630, 732
MlyI	GAGTC	2 cut(s)	421, 451
MroXI	GAANNNNTTC	2 cut(s)	72, 92
MseI	TTAA	2 cut(s)	602, 957
MslI	CAYNNNNRTG	1 cut(s)	503
MspI	CCGG	1 cut(s)	174
MspR9I	CCNGG	3 cut(s)	112, 704, 882
MunI	CAATTG	1 cut(s)	630
Mva1269I	GAATGC	1 cut(s)	847
MvaI	CCWGG	3 cut(s)	112, 704, 882
MwoI	GCNNNNNNNGC	3 cut(s)	537, 556, 974
NcoI	CCATGG	1 cut(s)	365
NdeII	GATC	3 cut(s)	626, 751, 997
NlaIII	CATG	7 cut(s)	66, 369, 376, 502, 694, 731, 1030
NlaIV	GGNNCC	1 cut(s)	453
NmuCI	GTSAC	1 cut(s)	295
PceI	AGGCCT	1 cut(s)	924
PciSI	GCTCTTC	1 cut(s)	381
PcsI	WCGNNNNNNNCGW	1 cut(s)	129
PctI	GAATGC	1 cut(s)	847
PdmI	GAANNNNTTC	2 cut(s)	72, 92
PfeI	GAWTC	4 cut(s)	305, 568, 711, 931
PflFI	GACNNNGTC	1 cut(s)	460
PfoI	TCCNGGA	1 cut(s)	702
PkrI	GCNGC	7 cut(s)	336, 436, 439, 484, 558, 726, 953
PleI	GAGTC	2 cut(s)	421, 451
PpsI	GAGTC	2 cut(s)	421, 451
Psp124BI	GAGCTC	1 cut(s)	9
Psp6I	CCWGG	3 cut(s)	110, 702, 880
PspEI	GGTNACC	1 cut(s)	295
PspGI	CCWGG	3 cut(s)	110, 702, 880
PspN4I	GGNNCC	1 cut(s)	453
PspPI	GGNCC	1 cut(s)	369
PstNI	CAGNNNCTG	1 cut(s)	488
PsyI	GACNNNGTC	1 cut(s)	460
RsaI	GTAC	2 cut(s)	248, 268
RsaNI	GTAC	2 cut(s)	247, 267
RseI	CAYNNNNRTG	1 cut(s)	503
SacI	GAGCTC	1 cut(s)	9
SapI	GCTCTTC	1 cut(s)	381
SaqAI	TTAA	2 cut(s)	602, 957
SatI	GCNGC	7 cut(s)	335, 435, 438, 483, 557, 725, 952
Sau3AI	GATC	3 cut(s)	626, 751, 997
Sau96I	GGNCC	1 cut(s)	369
SchI	GAGTC	2 cut(s)	421, 451
ScrFI	CCNGG	3 cut(s)	112, 704, 882
SduI	GDGCHC	1 cut(s)	9
SinI	GGWCC	1 cut(s)	369
SmiMI	CAYNNNNRTG	1 cut(s)	503
SmlI	CTYRAG	1 cut(s)	926
SmoI	CTYRAG	1 cut(s)	926
SpeI	ACTAGT	1 cut(s)	1009
Sse9I	AATT	3 cut(s)	182, 630, 732
SseBI	AGGCCT	1 cut(s)	924
SsiI	CCGC	4 cut(s)	335, 598, 610, 845
SspMI	CTAG	5 cut(s)	102, 518, 537, 803, 1010
SstI	GAGCTC	1 cut(s)	9
StuI	AGGCCT	1 cut(s)	924
StyD4I	CCNGG	3 cut(s)	110, 702, 880
StyI	CCWWGG	2 cut(s)	365, 909
TaaI	ACNGT	3 cut(s)	59, 901, 939
TaqI	TCGA	3 cut(s)	123, 132, 378
TasI	AATT	3 cut(s)	182, 630, 732
TatI	WGTACW	1 cut(s)	246
TauI	GCSGC	1 cut(s)	337
TfiI	GAWTC	4 cut(s)	305, 568, 711, 931
Tru1I	TTAA	2 cut(s)	602, 957
Tru9I	TTAA	2 cut(s)	602, 957
TscAI	CASTG	2 cut(s)	307, 944
TseFI	GTSAC	1 cut(s)	295
TseI	GCWGC	6 cut(s)	434, 437, 482, 556, 724, 951
Tsp45I	GTSAC	1 cut(s)	295
TspRI	CASTG	2 cut(s)	307, 944
Tth111I	GACNNNGTC	1 cut(s)	460
VpaK11BI	GGWCC	1 cut(s)	369
XapI	RAATTY	1 cut(s)	182
XmnI	GAANNNNTTC	2 cut(s)	72, 92
XspI	CTAG	5 cut(s)	102, 518, 537, 803, 1010

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