Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0003767

Physical Location & Seq

Genomic Coordinates Reverse (-)

76043789 .. 76045018

Gene Structure 1230 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00054660.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 852 bp

ATGGCCTTGAACTGGGAAGAACCTCAGTTTTTTGACTCAGACATGACTTGTATCCAGCAGAATCTAGAAGCAGAGCTAGTAGGAGACTTCCTTCAATGTGTTAATTCAGACTATTCTAATCCCCATAACTTTCTCGATCCATGGTATGACCCCTGTAATCTTCTTAACCTCGAAAATCCTGACTTTGATCATCTGCTTCCATCTTTTTCTCTCAAACCTGACATGTTTCCAGTACAAGATTTCGAACCTTACCCCCAACCGAAACGCCAAAAGTGCTCGAAAGAGTTCTATTGCCGGGATCTTACACCCACTTTCCCCAATGGGTTTGCTCCAAATCCATGTCCTAGGCCCGAGTTTTTTTCCGGGCCCTTTACTACTCCTGTGCTCAACTTTCAGCATCCGGAGGTTGTTGATGGCAATAACAGAAAAACTAGTGTTGAAAATGTGGGGAAGATAGTGGAAGAAAGAAGTGTATCGCCGCAGAGTATCGCGGCAAGAGAAAGGAGGAGGAAAATCACAGAGAAGACTCAAGAGCTAGGGAAGCTTGTTCCTGGAGGAAGCAAGATGAACACAGCTGAGATGCTCACTGCCGCTTACAACTATGTCAAGTTCTTGCAGGCTCAGATGGGGATTCTAGAGTTCATGGGGTCTTTTCAGGAAATGAAGGCAGATCATACACCTACCAAGGAACTACATGCCGTTGCATCTCCTAGTATTCAAGAGAAGCTCTATACGGAGCACAAGTGCTTGGTCCCAAAGGAGTTCGTAGAGGTATTAGCAAACCATTTTGATGCTGAATCGAAGCCTTCACTCTCCCACAAGCTCAACCAGCTGCTCAAACCTAGCGGTTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000976 GO:0000981 GO:0001046 GO:0001047 GO:0001067 GO:0001228 GO:0003674 GO:0003676 GO:0003677 GO:0003690 GO:0003700 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0006139 GO:0006351 GO:0006355 GO:0006357 GO:0006366 GO:0006725 GO:0006807 GO:0008150 GO:0008152 GO:0009058 GO:0009059 GO:0009889 GO:0009891 GO:0009893 GO:0009987 GO:0010467 GO:0010468 GO:0010556 GO:0010557 GO:0010604 GO:0010628 GO:0016070 GO:0018130 GO:0019219 GO:0019222 GO:0019438 GO:0031323 GO:0031325 GO:0031326 GO:0031328 GO:0032774 GO:0034641 GO:0034645 GO:0034654 GO:0043170 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044212 GO:0044237 GO:0044238 GO:0044249 GO:0044260 GO:0044271 GO:0044424 GO:0044464 GO:0045893 GO:0045935 GO:0045944 GO:0046483 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0051171 GO:0051173 GO:0051252 GO:0051254 GO:0060255 GO:0065007 GO:0071704 GO:0080090 GO:0090304 GO:0097159 GO:0097659 GO:0140110 GO:1901360 GO:1901362 GO:1901363 GO:1901576 GO:1902680 GO:1903506 GO:1903508 GO:1990837 GO:2000112 GO:2001141

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

HLH

Protein Analysis

283

Amino Acids

32.29

Weight (kDa)

5.33

Isoelectric Point (pI)

44.91

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HLH	PF00010	165 - 206	7.6e-06	Helix-loop-helix DNA-binding 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

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Orthologous Genes (Group: OG0003767)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT1G30670 AT2G34820
fragaria_vesca	FvH4_3g11190 FvH4_3g14980 FvH4_3g14980
malus_domestica	MD05G1228100.v1.1 MD05G1228800.v1.1 MD05G1265500.v1.1 MD10G1243500.v1.1
prunus_persica	Prupe.4G100400_v2.0.a1 Prupe.4G134200_v2.0.a1
pyrus_communis	pycom05g24960
rosa_chinensis	RchiOBHm_Chr5g0018101 RchiOBHm_Chr5g0024601
rosa_laevigata	RLG00000032340 RLG00000032809
rosa_multiflora	Rmu_sc0005699.1_g000003 Rmu_sc0010280.1_g000020 Rmu_sc0016842.1_g000001
rosa_roxburghii	Rroxscaffold_1G00054660 Rroxscaffold_1G00059520
rosa_rugosa	Rorug05G0040500.1 Rorug05G0040600 Rorug05G0084300
rosa_samantha	Rh5AG133200 Rh5AG176000 Rh5BG131800 Rh5BG173300 Rh5CG143800 Rh5CG189300 Rh5DG133500 Rh5DG174900
rosa_wichuraiana	Rw5G011610 Rw5G015900

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccII	CGCG	1 cut(s)	491
AccIII	TCCGGA	1 cut(s)	400
AciI	CCGC	4 cut(s)	479, 491, 591, 846
AclWI	GGATC	2 cut(s)	131, 306
AfaI	GTAC	1 cut(s)	234
AfiI	CCNNNNNNNGG	1 cut(s)	12
AflIII	ACRYGT	1 cut(s)	222
AgsI	TTSAA	4 cut(s)	10, 95, 440, 719
AhlI	ACTAGT	1 cut(s)	431
AjnI	CCWGG	1 cut(s)	550
AluBI	AGCT	7 cut(s)	76, 535, 544, 575, 727, 823, 832
AluI	AGCT	7 cut(s)	76, 535, 544, 575, 727, 823, 832
Alw21I	GWGCWC	3 cut(s)	278, 387, 741
Alw26I	GTCTC	1 cut(s)	78
AlwI	GGATC	2 cut(s)	131, 306
Ama87I	CYCGRG	1 cut(s)	350
Aor13HI	TCCGGA	1 cut(s)	400
AoxI	GGCC	3 cut(s)	3, 347, 365
ApaI	GGGCCC	1 cut(s)	369
ApeKI	GCWGC	1 cut(s)	832
Asp700I	GAANNNNTTC	1 cut(s)	284
AspA2I	CCTAGG	1 cut(s)	344
AspS9I	GGNCC	4 cut(s)	348, 365, 366, 751
AsuC2I	CCSGG	2 cut(s)	296, 364
AsuII	TTCGAA	1 cut(s)	243
AvaI	CYCGRG	1 cut(s)	350
AvaII	GGWCC	1 cut(s)	751
AvrII	CCTAGG	1 cut(s)	344
BaeGI	GKGCMC	1 cut(s)	369
BanII	GRGCYC	1 cut(s)	369
BbsI	GAAGAC	1 cut(s)	530
Bbv12I	GWGCWC	3 cut(s)	278, 387, 741
BbvI	GCAGC	1 cut(s)	819
BccI	CCATC	3 cut(s)	208, 407, 619
BceAI	ACGGC	1 cut(s)	683
BciT130I	CCWGG	1 cut(s)	552
BciVI	GTATCC	1 cut(s)	62
BclI	TGATCA	1 cut(s)	187
BcnI	CCSGG	2 cut(s)	296, 364
BcoDI	GTCTC	1 cut(s)	78
BcuI	ACTAGT	1 cut(s)	431
BfaI	CTAG	8 cut(s)	65, 77, 345, 432, 536, 635, 711, 843
BfuI	GTATCC	1 cut(s)	62
BisI	GCNGC	4 cut(s)	479, 492, 591, 833
BlnI	CCTAGG	1 cut(s)	344
BlsI	GCNGC	4 cut(s)	480, 493, 592, 834
Bme1390I	CCNGG	3 cut(s)	296, 364, 552
Bme18I	GGWCC	1 cut(s)	751
BmeT110I	CYCGRG	1 cut(s)	350
BmgT120I	GGNCC	4 cut(s)	348, 365, 366, 751
BmiI	GGNNCC	2 cut(s)	367, 753
BmrFI	CCNGG	3 cut(s)	296, 364, 552
BmrI	ACTGGG	1 cut(s)	22
BmsI	GCATC	4 cut(s)	406, 570, 713, 781
BmuI	ACTGGG	1 cut(s)	22
BpiI	GAAGAC	1 cut(s)	530
BpmI	CTGGAG	1 cut(s)	573
Bpu14I	TTCGAA	1 cut(s)	243
BpuEI	CTTGAG	1 cut(s)	513
BpuMI	CCSGG	2 cut(s)	296, 364
BsaJI	CCNNGG	3 cut(s)	140, 344, 684
BsaWI	WCCGGW	1 cut(s)	400
BsaXI	ACNNNNNCTCC	2 cut(s)	728, 758
Bsc4I	CCNNNNNNNGG	1 cut(s)	12
Bse1I	ACTGG	2 cut(s)	17, 230
BseAI	TCCGGA	1 cut(s)	400
BseBI	CCWGG	1 cut(s)	552
BseDI	CCNNGG	3 cut(s)	140, 344, 684
BseGI	GGATG	1 cut(s)	397
BseLI	CCNNNNNNNGG	1 cut(s)	12
BseMII	CTCAG	4 cut(s)	38, 51, 567, 635
BseNI	ACTGG	2 cut(s)	17, 230
BseRI	GAGGAG	1 cut(s)	520
BseSI	GKGCMC	1 cut(s)	369
BseXI	GCAGC	1 cut(s)	819
Bsh1236I	CGCG	1 cut(s)	491
BshFI	GGCC	3 cut(s)	5, 349, 367
BsiHKAI	GWGCWC	3 cut(s)	278, 387, 741
BsiHKCI	CYCGRG	1 cut(s)	350
BsiSI	CCGG	3 cut(s)	295, 363, 401
BslFI	GGGAC	1 cut(s)	737
BslI	CCNNNNNNNGG	1 cut(s)	12
BsmAI	GTCTC	1 cut(s)	78
BsmFI	GGGAC	1 cut(s)	737
BsnI	GGCC	3 cut(s)	5, 349, 367
BsoBI	CYCGRG	1 cut(s)	350
Bsp119I	TTCGAA	1 cut(s)	243
Bsp120I	GGGCCC	1 cut(s)	365
Bsp1286I	GDGCHC	4 cut(s)	278, 369, 387, 741
Bsp13I	TCCGGA	1 cut(s)	400
Bsp143I	GATC	4 cut(s)	136, 187, 298, 670
Bsp19I	CCATGG	1 cut(s)	140
BspACI	CCGC	4 cut(s)	479, 491, 591, 846
BspANI	GGCC	3 cut(s)	5, 349, 367
BspCNI	CTCAG	4 cut(s)	37, 50, 568, 634
BspEI	TCCGGA	1 cut(s)	400
BspFNI	CGCG	1 cut(s)	491
BspLI	GGNNCC	2 cut(s)	367, 753
BspPI	GGATC	2 cut(s)	131, 306
BspT104I	TTCGAA	1 cut(s)	243
BsrI	ACTGG	2 cut(s)	17, 230
BssECI	CCNNGG	3 cut(s)	140, 344, 684
BssMI	GATC	4 cut(s)	136, 187, 298, 670
BssT1I	CCWWGG	3 cut(s)	140, 344, 684
Bst2UI	CCWGG	1 cut(s)	552
BstBI	TTCGAA	1 cut(s)	243
BstC8I	GCNNGC	1 cut(s)	618
BstDEI	CTNAG	4 cut(s)	24, 37, 576, 621
BstDSI	CCRYGG	1 cut(s)	140
BstF5I	GGATG	1 cut(s)	397
BstFNI	CGCG	1 cut(s)	491
BstKTI	GATC	4 cut(s)	139, 190, 301, 673
BstMAI	GTCTC	1 cut(s)	78
BstMBI	GATC	4 cut(s)	136, 187, 298, 670
BstMWI	GCNNNNNNNGC	3 cut(s)	273, 541, 829
BstNI	CCWGG	1 cut(s)	552
BstNSI	RCATGY	2 cut(s)	226, 698
BstSCI	CCNGG	3 cut(s)	294, 362, 550
BstSLI	GKGCMC	1 cut(s)	369
BstUI	CGCG	1 cut(s)	491
BstV1I	GCAGC	1 cut(s)	819
BstV2I	GAAGAC	1 cut(s)	530
BstX2I	RGATCY	1 cut(s)	298
BstYI	RGATCY	1 cut(s)	298
BsuI	GTATCC	1 cut(s)	62
BsuRI	GGCC	3 cut(s)	5, 349, 367
BtgI	CCRYGG	1 cut(s)	140
BtsCI	GGATG	1 cut(s)	397
BtsI	GCAGTG	1 cut(s)	585
BtsIMutI	CAGTG	1 cut(s)	585
Cac8I	GCNNGC	1 cut(s)	618
Cfr13I	GGNCC	4 cut(s)	348, 365, 366, 751
Csp6I	GTAC	1 cut(s)	233
CviAII	CATG	6 cut(s)	43, 141, 223, 339, 643, 695
CviQI	GTAC	1 cut(s)	233
DdeI	CTNAG	4 cut(s)	24, 37, 576, 621
DpnI	GATC	4 cut(s)	138, 189, 300, 672
DpnII	GATC	4 cut(s)	136, 187, 298, 670
Eco130I	CCWWGG	3 cut(s)	140, 344, 684
Eco24I	GRGCYC	1 cut(s)	369
Eco47I	GGWCC	1 cut(s)	751
Eco88I	CYCGRG	1 cut(s)	350
EcoO109I	RGGNCCY	1 cut(s)	366
EcoRII	CCWGG	1 cut(s)	550
EcoT14I	CCWWGG	3 cut(s)	140, 344, 684
EcoT38I	GRGCYC	1 cut(s)	369
ErhI	CCWWGG	3 cut(s)	140, 344, 684
FaeI	CATG	6 cut(s)	46, 144, 226, 342, 646, 698
FaqI	GGGAC	1 cut(s)	737
FatI	CATG	6 cut(s)	42, 140, 222, 338, 642, 694
FbaI	TGATCA	1 cut(s)	187
Fnu4HI	GCNGC	4 cut(s)	479, 492, 591, 833
FokI	GGATG	1 cut(s)	384
FriOI	GRGCYC	1 cut(s)	369
Fsp4HI	GCNGC	4 cut(s)	479, 492, 591, 833
FspBI	CTAG	8 cut(s)	65, 77, 345, 432, 536, 635, 711, 843
GluI	GCNGC	4 cut(s)	479, 492, 591, 833
GsuI	CTGGAG	1 cut(s)	573
HaeIII	GGCC	3 cut(s)	5, 349, 367
HapII	CCGG	3 cut(s)	295, 363, 401
Hin1II	CATG	6 cut(s)	46, 144, 226, 342, 646, 698
HindIII	AAGCTT	1 cut(s)	542
HinfI	GANTC	5 cut(s)	35, 61, 526, 631, 797
HpaII	CCGG	3 cut(s)	295, 363, 401
Hpy188I	TCNGA	3 cut(s)	40, 109, 624
Hpy188III	TCNNGA	8 cut(s)	65, 134, 179, 401, 530, 635, 656, 719
HpyAV	CCTTC	3 cut(s)	101, 658, 816
HpyCH4V	TGCA	2 cut(s)	616, 704
HpyF10VI	GCNNNNNNNGC	3 cut(s)	273, 541, 829
HpyF3I	CTNAG	4 cut(s)	24, 37, 576, 621
Hsp92II	CATG	6 cut(s)	46, 144, 226, 342, 646, 698
Kpn2I	TCCGGA	1 cut(s)	400
Ksp22I	TGATCA	1 cut(s)	187
Kzo9I	GATC	4 cut(s)	136, 187, 298, 670
LmnI	GCTCC	2 cut(s)	334, 736
Lsp1109I	GCAGC	1 cut(s)	819
LweI	GCATC	4 cut(s)	406, 570, 713, 781
MaeI	CTAG	8 cut(s)	65, 77, 345, 432, 536, 635, 711, 843
MalI	GATC	4 cut(s)	138, 189, 300, 672
MboI	GATC	4 cut(s)	136, 187, 298, 670
MboII	GAAGA	5 cut(s)	29, 152, 463, 473, 535
MflI	RGATCY	1 cut(s)	298
MhlI	GDGCHC	4 cut(s)	278, 369, 387, 741
MluCI	AATT	1 cut(s)	103
MlyI	GAGTC	2 cut(s)	29, 520
MnlI	CCTC	7 cut(s)	33, 179, 397, 498, 501, 548, 763
MroI	TCCGGA	1 cut(s)	400
MroXI	GAANNNNTTC	1 cut(s)	284
MseI	TTAA	2 cut(s)	102, 165
MslI	CAYNNNNRTG	1 cut(s)	789
MspA1I	CMGCKG	2 cut(s)	575, 832
MspI	CCGG	3 cut(s)	295, 363, 401
MspR9I	CCNGG	3 cut(s)	296, 364, 552
MvaI	CCWGG	1 cut(s)	552
MvnI	CGCG	1 cut(s)	491
MwoI	GCNNNNNNNGC	3 cut(s)	273, 541, 829
NciI	CCSGG	2 cut(s)	296, 364
NcoI	CCATGG	1 cut(s)	140
NdeII	GATC	4 cut(s)	136, 187, 298, 670
NlaIII	CATG	6 cut(s)	46, 144, 226, 342, 646, 698
NlaIV	GGNNCC	2 cut(s)	367, 753
NspI	RCATGY	2 cut(s)	226, 698
NspV	TTCGAA	1 cut(s)	243
PciI	ACATGT	1 cut(s)	222
PdmI	GAANNNNTTC	1 cut(s)	284
PfeI	GAWTC	3 cut(s)	61, 631, 797
PfoI	TCCNGGA	1 cut(s)	550
PkrI	GCNGC	4 cut(s)	480, 493, 592, 834
PleI	GAGTC	2 cut(s)	29, 520
PpsI	GAGTC	2 cut(s)	29, 520
PscI	ACATGT	1 cut(s)	222
Psp6I	CCWGG	1 cut(s)	550
PspGI	CCWGG	1 cut(s)	550
PspN4I	GGNNCC	2 cut(s)	367, 753
PspOMI	GGGCCC	1 cut(s)	365
PspPI	GGNCC	4 cut(s)	348, 365, 366, 751
PsuI	RGATCY	1 cut(s)	298
PvuII	CAGCTG	2 cut(s)	575, 832
RsaI	GTAC	1 cut(s)	234
RsaNI	GTAC	1 cut(s)	233
RseI	CAYNNNNRTG	1 cut(s)	789
SaqAI	TTAA	2 cut(s)	102, 165
SatI	GCNGC	4 cut(s)	479, 492, 591, 833
Sau3AI	GATC	4 cut(s)	136, 187, 298, 670
Sau96I	GGNCC	4 cut(s)	348, 365, 366, 751
SchI	GAGTC	2 cut(s)	29, 520
ScrFI	CCNGG	3 cut(s)	296, 364, 552
SduI	GDGCHC	4 cut(s)	278, 369, 387, 741
SfaNI	GCATC	4 cut(s)	406, 570, 713, 781
SfuI	TTCGAA	1 cut(s)	243
SinI	GGWCC	1 cut(s)	751
SmiMI	CAYNNNNRTG	1 cut(s)	789
SmlI	CTYRAG	1 cut(s)	528
SmoI	CTYRAG	1 cut(s)	528
SpeI	ACTAGT	1 cut(s)	431
Sse9I	AATT	1 cut(s)	103
SsiI	CCGC	4 cut(s)	479, 491, 591, 846
SspMI	CTAG	8 cut(s)	65, 77, 345, 432, 536, 635, 711, 843
StyD4I	CCNGG	3 cut(s)	294, 362, 550
StyI	CCWWGG	3 cut(s)	140, 344, 684
TaqI	TCGA	5 cut(s)	135, 171, 243, 278, 800
TasI	AATT	1 cut(s)	103
TatI	WGTACW	1 cut(s)	232
TauI	GCSGC	3 cut(s)	481, 494, 593
TfiI	GAWTC	3 cut(s)	61, 631, 797
Tru1I	TTAA	2 cut(s)	102, 165
Tru9I	TTAA	2 cut(s)	102, 165
TscAI	CASTG	1 cut(s)	592
TseI	GCWGC	1 cut(s)	832
TspDTI	ATGAA	3 cut(s)	581, 631, 677
TspGWI	ACGGA	1 cut(s)	749
TspRI	CASTG	1 cut(s)	592
VpaK11BI	GGWCC	1 cut(s)	751
XbaI	TCTAGA	2 cut(s)	64, 634
XceI	RCATGY	2 cut(s)	226, 698
XmaJI	CCTAGG	1 cut(s)	344
XmnI	GAANNNNTTC	1 cut(s)	284
XspI	CTAG	8 cut(s)	65, 77, 345, 432, 536, 635, 711, 843

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