Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr3A

Orthogroup ID

OG0000717

Physical Location & Seq

Genomic Coordinates Forward (+)

36381053 .. 36391156

Gene Structure 10104 bp

Loading structure...

UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh3AG298000.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 816 bp

ATGCTTGTTTCGTCCGGACTCACTGTTGTTGAGGCTACAAGTTTTGTCTCGCCCAAATGGATTCCACAGTTGGCAGATGCAAAGGATGTAATGGAAGCGATTCGGAATATGGGAGGTGCTAAATTTCCCGTTTTAACTCCTAATCTCAAAGGTTTTGAGGCAGCTGTTGCTGCTGGTGCAAAGGAAGTTGCCATCTTTGCCTCGGCTTCTGAGTCTTTCTCAAAATCAAACATAAATTGCAGTATTGAAGACAGTCTCAGACGTTACCGTGATGTTGCTGTTGCTGCAAAAAAGCTTTCTATTCCTGTTCGAGGATATATATCATGTGTTGTGGGGTGTCCAATAGAAGGAGCTGTAGCCCCATCTCAAGTAGCATATGTGGCCAAAGAACTTCTTGATATGGGTTGCTTTGACATTTCTCTTGGCGATACAATTGGTGTTGGTACTCCAGGTAAATGTTCTTTTCGTTGGTTGTCATTCAAGTTGGTACAACTCCTTGAAGAGGTTATTGATGTGGTCCCCACTGAGAAGCTTGCTGTCCGTTTCCACGACACTTACGGCCAAGCTCTTCCAAATATACTAGTATCTCTTCAGATGGGCATCAGCACAGTGGATTCATTAGTCTCTGGTCTTGGGGGTTGTCCATATGCTAAAGGTGCTTCTGGCAATGTTGCCACCGAGGATGTTGTGTACATGCTTAATGGACTTGGAGTGAACACCAACATAGATCTTCAAAAGCTCATGTTGGCTGGGGACTTTATCTGCAAGCACTTGGGGGCGCTCATCTGGTTCAAAGGCAGCGGTTGCCCTGACTGA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0003674 GO:0003824 GO:0004419 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005737 GO:0005739 GO:0016829 GO:0016830 GO:0016833 GO:0043167 GO:0043169 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0044424 GO:0044444 GO:0044464 GO:0046872

KEGG Pathways

Metabolic & Signaling

ko00072 ko00280 ko00281 ko00650 ko01100 ko04146 map00072 map00280 map00281 map00650 map01100 map04146

Pfam Domains

Protein Families

HMGL-like

Protein Analysis

271

Amino Acids

28.61

Weight (kDa)

5.51

Isoelectric Point (pI)

35.84

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
HMGL-like	PF00682	1 - 254	8e-40	HMGL-like

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: OG0000717)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT2G26800 AT2G26800 AT2G26800 AT2G26800 AT2G26800
fragaria_vesca	FvH4_1g30200 FvH4_1g30200 FvH4_1g30200 FvH4_1g30200 FvH4_1g30200 FvH4_1g30200 FvH4_1g30200 FvH4_1g30200 FvH4_1g30200 FvH4_1g30200 FvH4_1g30200 FvH4_1g30200 FvH4_1g30200 FvH4_1g30200 FvH4_5g27390
malus_domestica	MD03G1157200.v1.1 MD11G1183500.v1.1 MD12G1006800.v1.1 MD12G1094600.v1.1 MD15G1420700.v1.1
prunus_persica	Prupe.4G270500_v2.0.a1 Prupe.4G270500_v2.0.a1 Prupe.4G270500_v2.0.a1 Prupe.7G031100_v2.0.a1 Prupe.7G031100_v2.0.a1 Prupe.7G031100_v2.0.a1 Prupe.7G031100_v2.0.a1 Prupe.7G031100_v2.0.a1 Prupe.7G031100_v2.0.a1 Prupe.7G031100_v2.0.a1
pyrus_communis	pycom12561g00230 pycom13g09650 pycom5153684g00060
rosa_chinensis	RchiOBHm_Chr3g0491291 RchiOBHm_Chr3g0491331 RchiOBHm_Chr3g0491351 RchiOBHm_Chr7g0218661
rosa_laevigata	RLG00000022846
rosa_multiflora	Rmu_co8125388.1_g000001 Rmu_co8321319.1_g000001 Rmu_sc0000293.1_g000014 Rmu_sc0000293.1_g000032 Rmu_sc0001301.1_g000016 Rmu_sc0005784.1_g000018 Rmu_sc0014162.1_g000014 Rmu_sc0014162.1_g000023
rosa_roxburghii	Rroxscaffold_2G00115200 Rroxscaffold_3G00240560 Rroxscaffold_6G00392960 Rroxscaffold_6G00392970 Rroxscaffold_6G00392980
rosa_rugosa	Rorug03G0248700 Rorug07G0179100
rosa_samantha	Rh3AG298000 Rh3AG298300 Rh3BG334100 Rh3CG331100 Rh3DG331900 Rh3DG332300 Rh3DG332600 Rh7AG320300 Rh7BG313100 Rh7CG337200 Rh7DG319300
rosa_wichuraiana	Rw3G026240 Rw3G026310 Rw7G026890 Rw7G027280

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
AccIII	TCCGGA	1 cut(s)	14
AciI	CCGC	1 cut(s)	801
AcoI	YGGCCR	2 cut(s)	381, 559
AcsI	RAATTY	1 cut(s)	122
AcuI	CTGAAG	1 cut(s)	575
AfaI	GTAC	3 cut(s)	445, 489, 692
AfiI	CCNNNNNNNGG	3 cut(s)	311, 347, 502
AgsI	TTSAA	5 cut(s)	248, 481, 500, 734, 793
AhlI	ACTAGT	1 cut(s)	580
AjnI	CCWGG	1 cut(s)	448
AluBI	AGCT	6 cut(s)	164, 295, 353, 532, 566, 739
AluI	AGCT	6 cut(s)	164, 295, 353, 532, 566, 739
Alw26I	GTCTC	3 cut(s)	52, 260, 628
Aor13HI	TCCGGA	1 cut(s)	14
AoxI	GGCC	2 cut(s)	381, 559
ApeKI	GCWGC	4 cut(s)	161, 170, 284, 798
ApoI	RAATTY	1 cut(s)	122
Asp700I	GAANNNNTTC	1 cut(s)	99
AspLEI	GCGC	1 cut(s)	781
AspS9I	GGNCC	1 cut(s)	517
AvaII	GGWCC	1 cut(s)	517
BalI	TGGCCA	1 cut(s)	383
BbsI	GAAGAC	1 cut(s)	255
BbvI	GCAGC	4 cut(s)	157, 173, 271, 810
BccI	CCATC	3 cut(s)	200, 370, 589
BceAI	ACGGC	1 cut(s)	574
BciT130I	CCWGG	1 cut(s)	450
BcoDI	GTCTC	3 cut(s)	52, 260, 628
BcuI	ACTAGT	1 cut(s)	580
BfaI	CTAG	1 cut(s)	581
BfmI	CTRYAG	1 cut(s)	354
BfoI	RGCGCY	1 cut(s)	782
BglII	AGATCT	1 cut(s)	727
BisI	GCNGC	4 cut(s)	162, 171, 285, 799
BlsI	GCNGC	4 cut(s)	163, 172, 286, 800
Bme1390I	CCNGG	1 cut(s)	450
Bme18I	GGWCC	1 cut(s)	517
BmgT120I	GGNCC	1 cut(s)	517
BmiI	GGNNCC	1 cut(s)	519
BmrFI	CCNGG	1 cut(s)	450
BmsI	GCATC	2 cut(s)	67, 609
BpiI	GAAGAC	1 cut(s)	255
BplI	GAGNNNNNCTC	2 cut(s)	203, 235
BpmI	CTGGAG	1 cut(s)	432
BpuEI	CTTGAG	1 cut(s)	351
BsaBI	GATNNNNATC	2 cut(s)	319, 599
BsaJI	CCNNGG	2 cut(s)	201, 678
BsaWI	WCCGGW	1 cut(s)	14
Bsc4I	CCNNNNNNNGG	3 cut(s)	311, 347, 502
Bse3DI	GCAATG	1 cut(s)	673
Bse8I	GATNNNNATC	2 cut(s)	319, 599
BseAI	TCCGGA	1 cut(s)	14
BseBI	CCWGG	1 cut(s)	450
BseDI	CCNNGG	2 cut(s)	201, 678
BseGI	GGATG	2 cut(s)	91, 688
BseJI	GATNNNNATC	2 cut(s)	319, 599
BseLI	CCNNNNNNNGG	3 cut(s)	311, 347, 502
BseMI	GCAATG	1 cut(s)	673
BseMII	CTCAG	3 cut(s)	201, 271, 516
BseXI	GCAGC	4 cut(s)	157, 173, 271, 810
BseYI	CCCAGC	1 cut(s)	749
BshFI	GGCC	2 cut(s)	383, 561
BsiSI	CCGG	1 cut(s)	15
BslFI	GGGAC	2 cut(s)	503, 767
BslI	CCNNNNNNNGG	3 cut(s)	311, 347, 502
BsmAI	GTCTC	3 cut(s)	52, 260, 628
BsmFI	GGGAC	2 cut(s)	503, 767
BsnI	GGCC	2 cut(s)	383, 561
Bsp13I	TCCGGA	1 cut(s)	14
Bsp1407I	TGTACA	1 cut(s)	690
Bsp143I	GATC	1 cut(s)	727
BspACI	CCGC	1 cut(s)	801
BspANI	GGCC	2 cut(s)	383, 561
BspCNI	CTCAG	3 cut(s)	202, 270, 517
BspEI	TCCGGA	1 cut(s)	14
BspLI	GGNNCC	1 cut(s)	519
BspQI	GCTCTTC	1 cut(s)	573
BsrDI	GCAATG	1 cut(s)	673
BsrGI	TGTACA	1 cut(s)	690
BssECI	CCNNGG	2 cut(s)	201, 678
BssMI	GATC	1 cut(s)	727
Bst2UI	CCWGG	1 cut(s)	450
Bst4CI	ACNGT	5 cut(s)	25, 69, 254, 269, 610
Bst6I	CTCTTC	3 cut(s)	495, 573, 594
BstAPI	GCANNNNNTGC	2 cut(s)	167, 804
BstAUI	TGTACA	1 cut(s)	690
BstC8I	GCNNGC	2 cut(s)	534, 767
BstDEI	CTNAG	3 cut(s)	210, 257, 525
BstENI	CCTNNNNNAGG	2 cut(s)	309, 500
BstF5I	GGATG	2 cut(s)	91, 688
BstH2I	RGCGCY	1 cut(s)	782
BstHHI	GCGC	1 cut(s)	781
BstKTI	GATC	1 cut(s)	730
BstMAI	GTCTC	3 cut(s)	52, 260, 628
BstMBI	GATC	1 cut(s)	727
BstMWI	GCNNNNNNNGC	8 cut(s)	167, 170, 176, 197, 284, 380, 656, 804
BstNI	CCWGG	1 cut(s)	450
BstNSI	RCATGY	1 cut(s)	697
BstSCI	CCNGG	1 cut(s)	448
BstSFI	CTRYAG	1 cut(s)	354
BstV1I	GCAGC	4 cut(s)	157, 173, 271, 810
BstV2I	GAAGAC	1 cut(s)	255
BstX2I	RGATCY	1 cut(s)	727
BstYI	RGATCY	1 cut(s)	727
BsuRI	GGCC	2 cut(s)	383, 561
BtsCI	GGATG	2 cut(s)	91, 688
BtsIMutI	CAGTG	3 cut(s)	21, 522, 615
Cac8I	GCNNGC	2 cut(s)	534, 767
CfoI	GCGC	1 cut(s)	781
Cfr13I	GGNCC	1 cut(s)	517
Csp6I	GTAC	3 cut(s)	444, 488, 691
CviAII	CATG	3 cut(s)	324, 694, 742
CviQI	GTAC	3 cut(s)	444, 488, 691
DdeI	CTNAG	3 cut(s)	210, 257, 525
DpnI	GATC	1 cut(s)	729
DpnII	GATC	1 cut(s)	727
EaeI	YGGCCR	2 cut(s)	381, 559
Eam1104I	CTCTTC	3 cut(s)	495, 573, 594
EarI	CTCTTC	3 cut(s)	495, 573, 594
Eco47I	GGWCC	1 cut(s)	517
Eco57I	CTGAAG	1 cut(s)	575
EcoNI	CCTNNNNNAGG	2 cut(s)	309, 500
EcoRII	CCWGG	1 cut(s)	448
FaeI	CATG	3 cut(s)	327, 697, 745
FalI	AAGNNNNNCTT	2 cut(s)	378, 410
FaqI	GGGAC	2 cut(s)	503, 767
FatI	CATG	3 cut(s)	323, 693, 741
FauNDI	CATATG	2 cut(s)	376, 646
Fnu4HI	GCNGC	4 cut(s)	162, 171, 285, 799
FokI	GGATG	2 cut(s)	98, 695
Fsp4HI	GCNGC	4 cut(s)	162, 171, 285, 799
FspBI	CTAG	1 cut(s)	581
GlaI	GCGC	1 cut(s)	780
GluI	GCNGC	4 cut(s)	162, 171, 285, 799
GsaI	CCCAGC	1 cut(s)	753
GsuI	CTGGAG	1 cut(s)	432
HaeII	RGCGCY	1 cut(s)	782
HaeIII	GGCC	2 cut(s)	383, 561
HapII	CCGG	1 cut(s)	15
HhaI	GCGC	1 cut(s)	781
Hin1II	CATG	3 cut(s)	327, 697, 745
Hin6I	GCGC	1 cut(s)	779
HinP1I	GCGC	1 cut(s)	779
HindIII	AAGCTT	2 cut(s)	293, 530
HinfI	GANTC	5 cut(s)	18, 61, 100, 212, 614
HpaII	CCGG	1 cut(s)	15
Hpy166II	GTNNAC	2 cut(s)	691, 715
Hpy188I	TCNGA	4 cut(s)	105, 211, 260, 594
Hpy188III	TCNNGA	2 cut(s)	15, 395
Hpy8I	GTNNAC	2 cut(s)	691, 715
HpyAV	CCTTC	1 cut(s)	341
HpyCH4III	ACNGT	5 cut(s)	25, 69, 254, 269, 610
HpyCH4IV	ACGT	1 cut(s)	262
HpyCH4V	TGCA	5 cut(s)	80, 179, 240, 287, 765
HpyF10VI	GCNNNNNNNGC	8 cut(s)	167, 170, 176, 197, 284, 380, 656, 804
HpyF3I	CTNAG	3 cut(s)	210, 257, 525
HpySE526I	ACGT	1 cut(s)	262
Hsp92II	CATG	3 cut(s)	327, 697, 745
HspAI	GCGC	1 cut(s)	779
Kpn2I	TCCGGA	1 cut(s)	14
Kzo9I	GATC	1 cut(s)	727
LguI	GCTCTTC	1 cut(s)	573
LmnI	GCTCC	1 cut(s)	350
LpnPI	CCDG	9 cut(s)	28, 159, 318, 435, 462, 612, 648, 735, 772
Lsp1109I	GCAGC	4 cut(s)	157, 173, 271, 810
LweI	GCATC	2 cut(s)	67, 609
MaeI	CTAG	1 cut(s)	581
MaeII	ACGT	1 cut(s)	262
MaeIII	GTNAC	1 cut(s)	263
MalI	GATC	1 cut(s)	729
MboI	GATC	1 cut(s)	727
MboII	GAAGA	5 cut(s)	260, 512, 560, 581, 722
MfeI	CAATTG	1 cut(s)	432
MflI	RGATCY	1 cut(s)	727
MlsI	TGGCCA	1 cut(s)	383
MluCI	AATT	3 cut(s)	122, 235, 432
MluNI	TGGCCA	1 cut(s)	383
MlyI	GAGTC	2 cut(s)	12, 221
MnlI	CCTC	7 cut(s)	25, 107, 151, 211, 305, 496, 673
Mox20I	TGGCCA	1 cut(s)	383
MroI	TCCGGA	1 cut(s)	14
MroXI	GAANNNNTTC	1 cut(s)	99
MscI	TGGCCA	1 cut(s)	383
MseI	TTAA	2 cut(s)	134, 699
Msp20I	TGGCCA	1 cut(s)	383
MspA1I	CMGCKG	2 cut(s)	164, 801
MspI	CCGG	1 cut(s)	15
MspR9I	CCNGG	1 cut(s)	450
MunI	CAATTG	1 cut(s)	432
MvaI	CCWGG	1 cut(s)	450
MwoI	GCNNNNNNNGC	8 cut(s)	167, 170, 176, 197, 284, 380, 656, 804
NdeI	CATATG	2 cut(s)	376, 646
NdeII	GATC	1 cut(s)	727
NlaIII	CATG	3 cut(s)	327, 697, 745
NlaIV	GGNNCC	1 cut(s)	519
NmeAIII	GCCGAG	1 cut(s)	182
NspI	RCATGY	1 cut(s)	697
PciSI	GCTCTTC	1 cut(s)	573
PdmI	GAANNNNTTC	1 cut(s)	99
PfeI	GAWTC	3 cut(s)	61, 100, 614
PkrI	GCNGC	4 cut(s)	163, 172, 286, 800
PleI	GAGTC	2 cut(s)	12, 220
PpsI	GAGTC	2 cut(s)	12, 220
Psp6I	CCWGG	1 cut(s)	448
PspFI	CCCAGC	1 cut(s)	749
PspGI	CCWGG	1 cut(s)	448
PspN4I	GGNNCC	1 cut(s)	519
PspPI	GGNCC	1 cut(s)	517
PsuI	RGATCY	1 cut(s)	727
PvuII	CAGCTG	1 cut(s)	164
RsaI	GTAC	3 cut(s)	445, 489, 692
RsaNI	GTAC	3 cut(s)	444, 488, 691
SapI	GCTCTTC	1 cut(s)	573
SaqAI	TTAA	2 cut(s)	134, 699
SatI	GCNGC	4 cut(s)	162, 171, 285, 799
Sau3AI	GATC	1 cut(s)	727
Sau96I	GGNCC	1 cut(s)	517
SchI	GAGTC	2 cut(s)	12, 221
ScrFI	CCNGG	1 cut(s)	450
SfaNI	GCATC	2 cut(s)	67, 609
SfcI	CTRYAG	1 cut(s)	354
SinI	GGWCC	1 cut(s)	517
SmlI	CTYRAG	1 cut(s)	366
SmoI	CTYRAG	1 cut(s)	366
SpeI	ACTAGT	1 cut(s)	580
Sse9I	AATT	3 cut(s)	122, 235, 432
SsiI	CCGC	1 cut(s)	801
SspMI	CTAG	1 cut(s)	581
StyD4I	CCNGG	1 cut(s)	448
TaaI	ACNGT	5 cut(s)	25, 69, 254, 269, 610
TaiI	ACGT	1 cut(s)	265
TaqI	TCGA	1 cut(s)	310
TasI	AATT	3 cut(s)	122, 235, 432
TatI	WGTACW	1 cut(s)	690
TfiI	GAWTC	3 cut(s)	61, 100, 614
Tru1I	TTAA	2 cut(s)	134, 699
Tru9I	TTAA	2 cut(s)	134, 699
TscAI	CASTG	3 cut(s)	28, 529, 615
TseI	GCWGC	4 cut(s)	161, 170, 284, 798
TspDTI	ATGAA	1 cut(s)	606
TspGWI	ACGGA	1 cut(s)	530
TspRI	CASTG	3 cut(s)	28, 529, 615
VpaK11BI	GGWCC	1 cut(s)	517
XagI	CCTNNNNNAGG	2 cut(s)	309, 500
XapI	RAATTY	1 cut(s)	122
XceI	RCATGY	1 cut(s)	697
XmnI	GAANNNNTTC	1 cut(s)	99
XspI	CTAG	1 cut(s)	581

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