Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0003767

Physical Location & Seq

Genomic Coordinates Forward (+)

19457316 .. 19458765

Gene Structure 1450 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG176000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 849 bp

ATGGCCTTGAACTGGGAAGTGCCTCAGTTTTTTGACTCAGACATGACTTGTATCCAGCAGAATCTAGAAGCAGAGCTAGTAGGAGACTTCCTTCAATGTGTTAATTCAGACTATTCCAATCCCCATAACTTTCTCGATCCATGGTATGACCCCTGTAATCTTCTTAACCTCGAAAATCCTGACTTTGATCATCTGCTTCCACCTTTTTCTCTCAAACCTGACATGTTTCCAGTACAAGATTTCGAACCTTACCCCCAACCGAAACGCCAAAAGTGCTCAAAAGAGTACTATTGCCGTGATCTTACACCCACTTTCTCTAATGGGTTTGCTCCAAACCCATGTCCTAGGCCCGAGTTTTTTTCCAGGGCCTTTACTACTCCGGTGCTCAACTTTCAGCATCCGGAGGTTGTTGATGGCAATACCAGAAAAACTAGTGTTGAAAATGTGGGGAAGAAAGTGGAAGAAAGAAGTGTATCGCCGCAGAGTATCGCGGCAAGAGAAAGGAGGAGGAAAATCACAGAGAAGACTCAAGAGCTAGGGAAGCTTGTTCCTGGAGGAAGCAAGATGAACACAGCTGAGATGCTCACTGCTGCTTACAACTATGTCAAGTTCTTGCAGGCTCAGATGGGGATTCTCGAGTTCATGGGGTCCTTTCAGGAAATGAAGGCAGATCATACACCTACCAAACTGCATGTCGTTGCATCTCCTACTATTCAAGAGAAGCTCTATTTGGAGCATAAGTGCTTGGTCCCAAAGGAGTTCGTAGAGGTATTAGCAAACCATTTTGATGCTGAATCGAAGCCTTCACTCTCCCACAAGCTCAACCAGCTGCTCAAACCTAGCGGATGA

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

282

Amino Acids

32.28

Weight (kDa)

5.79

Isoelectric Point (pI)

41.79

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

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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	3 cut(s)	479, 491, 843
AclWI	GGATC	1 cut(s)	131
AfaI	GTAC	2 cut(s)	234, 287
AfiI	CCNNNNNNNGG	1 cut(s)	12
AflIII	ACRYGT	1 cut(s)	222
AgsI	TTSAA	4 cut(s)	10, 95, 440, 716
AhlI	ACTAGT	1 cut(s)	431
AjnI	CCWGG	2 cut(s)	362, 550
AjuI	GAANNNNNNNTTGG	2 cut(s)	713, 745
AluBI	AGCT	7 cut(s)	76, 535, 544, 575, 724, 820, 829
AluI	AGCT	7 cut(s)	76, 535, 544, 575, 724, 820, 829
Alw21I	GWGCWC	2 cut(s)	278, 387
Alw26I	GTCTC	1 cut(s)	78
AlwI	GGATC	1 cut(s)	131
Ama87I	CYCGRG	2 cut(s)	350, 635
Aor13HI	TCCGGA	1 cut(s)	400
AoxI	GGCC	3 cut(s)	3, 347, 366
ApeKI	GCWGC	2 cut(s)	590, 829
ArsI	GACNNNNNNTTYG	2 cut(s)	678, 710
AspA2I	CCTAGG	1 cut(s)	344
AspS9I	GGNCC	4 cut(s)	348, 366, 648, 748
AsuII	TTCGAA	1 cut(s)	243
AvaI	CYCGRG	2 cut(s)	350, 635
AvaII	GGWCC	2 cut(s)	648, 748
AvrII	CCTAGG	1 cut(s)	344
BbsI	GAAGAC	1 cut(s)	530
Bbv12I	GWGCWC	2 cut(s)	278, 387
BbvI	GCAGC	2 cut(s)	577, 816
BccI	CCATC	2 cut(s)	407, 619
BceAI	ACGGC	1 cut(s)	279
BciT130I	CCWGG	2 cut(s)	364, 552
BciVI	GTATCC	1 cut(s)	62
BclI	TGATCA	1 cut(s)	187
BcoDI	GTCTC	1 cut(s)	78
BcuI	ACTAGT	1 cut(s)	431
BfaI	CTAG	6 cut(s)	65, 77, 345, 432, 536, 840
BfuI	GTATCC	1 cut(s)	62
BisI	GCNGC	4 cut(s)	479, 492, 591, 830
BlnI	CCTAGG	1 cut(s)	344
BlsI	GCNGC	4 cut(s)	480, 493, 592, 831
BmcAI	AGTACT	1 cut(s)	287
Bme1390I	CCNGG	2 cut(s)	364, 552
Bme18I	GGWCC	2 cut(s)	648, 748
BmeT110I	CYCGRG	2 cut(s)	350, 635
BmgT120I	GGNCC	4 cut(s)	348, 366, 648, 748
BmiI	GGNNCC	2 cut(s)	649, 750
BmrFI	CCNGG	2 cut(s)	364, 552
BmrI	ACTGGG	1 cut(s)	22
BmsI	GCATC	4 cut(s)	406, 570, 710, 778
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
BsaJI	CCNNGG	3 cut(s)	140, 344, 363
BsaWI	WCCGGW	2 cut(s)	379, 400
BsaXI	ACNNNNNCTCC	2 cut(s)	725, 755
Bsc4I	CCNNNNNNNGG	1 cut(s)	12
Bse1I	ACTGG	2 cut(s)	17, 230
BseAI	TCCGGA	1 cut(s)	400
BseBI	CCWGG	2 cut(s)	364, 552
BseDI	CCNNGG	3 cut(s)	140, 344, 363
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
BseXI	GCAGC	2 cut(s)	577, 816
Bsh1236I	CGCG	1 cut(s)	491
BshFI	GGCC	3 cut(s)	5, 349, 368
BsiHKAI	GWGCWC	2 cut(s)	278, 387
BsiHKCI	CYCGRG	2 cut(s)	350, 635
BsiSI	CCGG	2 cut(s)	380, 401
BslFI	GGGAC	1 cut(s)	734
BslI	CCNNNNNNNGG	1 cut(s)	12
BsmAI	GTCTC	1 cut(s)	78
BsmFI	GGGAC	1 cut(s)	734
BsnI	GGCC	3 cut(s)	5, 349, 368
BsoBI	CYCGRG	2 cut(s)	350, 635
Bsp119I	TTCGAA	1 cut(s)	243
Bsp1286I	GDGCHC	2 cut(s)	278, 387
Bsp13I	TCCGGA	1 cut(s)	400
Bsp143I	GATC	4 cut(s)	136, 187, 298, 670
Bsp19I	CCATGG	1 cut(s)	140
BspACI	CCGC	3 cut(s)	479, 491, 843
BspANI	GGCC	3 cut(s)	5, 349, 368
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)	649, 750
BspPI	GGATC	1 cut(s)	131
BspT104I	TTCGAA	1 cut(s)	243
BsrI	ACTGG	2 cut(s)	17, 230
BssECI	CCNNGG	3 cut(s)	140, 344, 363
BssMI	GATC	4 cut(s)	136, 187, 298, 670
BssT1I	CCWWGG	2 cut(s)	140, 344
Bst2UI	CCWGG	2 cut(s)	364, 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, 826
BstNI	CCWGG	2 cut(s)	364, 552
BstNSI	RCATGY	2 cut(s)	226, 695
BstSCI	CCNGG	2 cut(s)	362, 550
BstUI	CGCG	1 cut(s)	491
BstV1I	GCAGC	2 cut(s)	577, 816
BstV2I	GAAGAC	1 cut(s)	530
BsuI	GTATCC	1 cut(s)	62
BsuRI	GGCC	3 cut(s)	5, 349, 368
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, 366, 648, 748
Csp6I	GTAC	2 cut(s)	233, 286
CviAII	CATG	6 cut(s)	43, 141, 223, 339, 643, 692
CviQI	GTAC	2 cut(s)	233, 286
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	2 cut(s)	140, 344
Eco47I	GGWCC	2 cut(s)	648, 748
Eco88I	CYCGRG	2 cut(s)	350, 635
EcoO109I	RGGNCCY	2 cut(s)	366, 648
EcoRII	CCWGG	2 cut(s)	362, 550
EcoT14I	CCWWGG	2 cut(s)	140, 344
ErhI	CCWWGG	2 cut(s)	140, 344
FaeI	CATG	6 cut(s)	46, 144, 226, 342, 646, 695
FaqI	GGGAC	1 cut(s)	734
FatI	CATG	6 cut(s)	42, 140, 222, 338, 642, 691
FbaI	TGATCA	1 cut(s)	187
Fnu4HI	GCNGC	4 cut(s)	479, 492, 591, 830
FokI	GGATG	1 cut(s)	384
Fsp4HI	GCNGC	4 cut(s)	479, 492, 591, 830
FspBI	CTAG	6 cut(s)	65, 77, 345, 432, 536, 840
GluI	GCNGC	4 cut(s)	479, 492, 591, 830
GsuI	CTGGAG	1 cut(s)	573
HaeIII	GGCC	3 cut(s)	5, 349, 368
HapII	CCGG	2 cut(s)	380, 401
Hin1II	CATG	6 cut(s)	46, 144, 226, 342, 646, 695
HindIII	AAGCTT	1 cut(s)	542
HinfI	GANTC	5 cut(s)	35, 61, 526, 631, 794
HpaII	CCGG	2 cut(s)	380, 401
Hpy188I	TCNGA	3 cut(s)	40, 109, 624
Hpy188III	TCNNGA	8 cut(s)	65, 134, 179, 401, 530, 635, 656, 716
HpyAV	CCTTC	3 cut(s)	101, 658, 813
HpyCH4V	TGCA	3 cut(s)	616, 691, 701
HpyF10VI	GCNNNNNNNGC	3 cut(s)	273, 541, 826
HpyF3I	CTNAG	4 cut(s)	24, 37, 576, 621
Hsp92II	CATG	6 cut(s)	46, 144, 226, 342, 646, 695
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, 733
Lsp1109I	GCAGC	2 cut(s)	577, 816
LweI	GCATC	4 cut(s)	406, 570, 710, 778
MaeI	CTAG	6 cut(s)	65, 77, 345, 432, 536, 840
MalI	GATC	4 cut(s)	138, 189, 300, 672
MboI	GATC	4 cut(s)	136, 187, 298, 670
MboII	GAAGA	4 cut(s)	152, 463, 473, 535
MhlI	GDGCHC	2 cut(s)	278, 387
MluCI	AATT	1 cut(s)	103
MlyI	GAGTC	2 cut(s)	29, 520
MnlI	CCTC	7 cut(s)	33, 179, 397, 498, 501, 548, 760
MroI	TCCGGA	1 cut(s)	400
MseI	TTAA	2 cut(s)	102, 165
MslI	CAYNNNNRTG	1 cut(s)	786
MspA1I	CMGCKG	2 cut(s)	575, 829
MspI	CCGG	2 cut(s)	380, 401
MspR9I	CCNGG	2 cut(s)	364, 552
MvaI	CCWGG	2 cut(s)	364, 552
MvnI	CGCG	1 cut(s)	491
MwoI	GCNNNNNNNGC	3 cut(s)	273, 541, 826
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, 695
NlaIV	GGNNCC	2 cut(s)	649, 750
NspI	RCATGY	2 cut(s)	226, 695
NspV	TTCGAA	1 cut(s)	243
PaeR7I	CTCGAG	1 cut(s)	635
PciI	ACATGT	1 cut(s)	222
PfeI	GAWTC	3 cut(s)	61, 631, 794
PfoI	TCCNGGA	1 cut(s)	550
PkrI	GCNGC	4 cut(s)	480, 493, 592, 831
PleI	GAGTC	2 cut(s)	29, 520
PpsI	GAGTC	2 cut(s)	29, 520
PpuMI	RGGWCCY	1 cut(s)	648
PscI	ACATGT	1 cut(s)	222
Psp5II	RGGWCCY	1 cut(s)	648
Psp6I	CCWGG	2 cut(s)	362, 550
PspGI	CCWGG	2 cut(s)	362, 550
PspN4I	GGNNCC	2 cut(s)	649, 750
PspPI	GGNCC	4 cut(s)	348, 366, 648, 748
PspPPI	RGGWCCY	1 cut(s)	648
PvuII	CAGCTG	2 cut(s)	575, 829
RsaI	GTAC	2 cut(s)	234, 287
RsaNI	GTAC	2 cut(s)	233, 286
RseI	CAYNNNNRTG	1 cut(s)	786
SaqAI	TTAA	2 cut(s)	102, 165
SatI	GCNGC	4 cut(s)	479, 492, 591, 830
Sau3AI	GATC	4 cut(s)	136, 187, 298, 670
Sau96I	GGNCC	4 cut(s)	348, 366, 648, 748
ScaI	AGTACT	1 cut(s)	287
SchI	GAGTC	2 cut(s)	29, 520
ScrFI	CCNGG	2 cut(s)	364, 552
SduI	GDGCHC	2 cut(s)	278, 387
SfaNI	GCATC	4 cut(s)	406, 570, 710, 778
Sfr274I	CTCGAG	1 cut(s)	635
SfuI	TTCGAA	1 cut(s)	243
SinI	GGWCC	2 cut(s)	648, 748
SlaI	CTCGAG	1 cut(s)	635
SmiMI	CAYNNNNRTG	1 cut(s)	786
SmlI	CTYRAG	2 cut(s)	528, 635
SmoI	CTYRAG	2 cut(s)	528, 635
SpeI	ACTAGT	1 cut(s)	431
Sse9I	AATT	1 cut(s)	103
SsiI	CCGC	3 cut(s)	479, 491, 843
SspMI	CTAG	6 cut(s)	65, 77, 345, 432, 536, 840
StyD4I	CCNGG	2 cut(s)	362, 550
StyI	CCWWGG	2 cut(s)	140, 344
TaqI	TCGA	5 cut(s)	135, 171, 243, 636, 797
TasI	AATT	1 cut(s)	103
TatI	WGTACW	2 cut(s)	232, 285
TauI	GCSGC	2 cut(s)	481, 494
TfiI	GAWTC	3 cut(s)	61, 631, 794
Tru1I	TTAA	2 cut(s)	102, 165
Tru9I	TTAA	2 cut(s)	102, 165
TscAI	CASTG	1 cut(s)	592
TseI	GCWGC	2 cut(s)	590, 829
TspDTI	ATGAA	3 cut(s)	581, 631, 677
TspRI	CASTG	1 cut(s)	592
VpaK11BI	GGWCC	2 cut(s)	648, 748
XbaI	TCTAGA	1 cut(s)	64
XceI	RCATGY	2 cut(s)	226, 695
XhoI	CTCGAG	1 cut(s)	635
XmaJI	CCTAGG	1 cut(s)	344
XspI	CTAG	6 cut(s)	65, 77, 345, 432, 536, 840
ZrmI	AGTACT	1 cut(s)	287

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