Basic Information

Type: gene

Biological Identity

Species

rosa_roxburghii

Chromosome

GWHEROQ00000001

Orthogroup ID

OG0002318

Physical Location & Seq

Genomic Coordinates Forward (+)

21705442 .. 21709017

Gene Structure 3576 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rroxscaffold_1G00017700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 768 bp

ATGAACAGGAGGAGAAGATCATCACCACCGGAGCCACTTCCGCTTCAGGCATTGACGCCGGTGAAAGAAGAAGACGACCCCAGAACAAATTGGCAGTTGGTGACCGCTGCTTCTGAGCGCTACGGACTCCCAGATGGTTGGTGCGTTGAGGAAATCCCCCGTCGCTTTACCCACTCCCGTCCCGCTCGAGTTGACAGGTATTTCATTGAGCCTGACACGGGACAGAAGTTTCGTTCGCTAGTAGCTGTCCACAGATATCTAACAGGCGGACAAGTTGATACACATGCCACTATGCAATTTAAACCACACACCATGAGGTGTAGTTCTTCCTTTGTACTACCAGATGGTTGGGAAATTGAGGAAAAGCCACGAAAGAATACTAATACTGGTCACAGTGACAAGTATTATATTGAGCCAGGAACTGGAAGGCGGTTCCGTTCTTTAGTAGCTGTTGAGAGATACCTAACAGAAGAAAATGAACACACTCCACTTCAGGCATTGATACCTGCCAATAAGTTGATTCTTTCGAGTGGATCCAGCAGCCAGAAGAAAAAGATTCGGTCCCTGAAATTTGTTTCTAAGAATTCATCACATTCAAACCCTGCAGAGCATTTTAGTAGTCCCAAGAAAGAAATTCTCCCAGAAATCAGTAGACCTTCGCAGCTCAATATTAGCAGACCACCAACAAAAGTTAAATGGGTCCTCGTCGGTCCTGGGGGAAAAATTGGAACCCCTTCATGGATGATTCTAGAGTCGCCGATTCTGTAA

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005515 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005694 GO:0008150 GO:0008327 GO:0009628 GO:0009893 GO:0010369 GO:0010604 GO:0019219 GO:0019222 GO:0019899 GO:0031323 GO:0031325 GO:0036094 GO:0043226 GO:0043227 GO:0043228 GO:0043229 GO:0043231 GO:0043232 GO:0043565 GO:0044422 GO:0044424 GO:0044427 GO:0044446 GO:0044464 GO:0045935 GO:0048518 GO:0048522 GO:0050789 GO:0050794 GO:0050896 GO:0051052 GO:0051054 GO:0051171 GO:0051173 GO:0060255 GO:0065007 GO:0080090 GO:0080167 GO:0097159 GO:0098687 GO:1901265 GO:1901363 GO:1901535 GO:1901537

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

MBD

Protein Analysis

255

Amino Acids

29.0

Weight (kDa)

9.82

Isoelectric Point (pI)

67.6

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MBD	PF01429	40 - 92	3.9e-07	Methyl-CpG binding domain
MBD	PF01429	112 - 163	3.8e-10	Methyl-CpG 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: OG0002318)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT5G59800
fragaria_vesca	FvH4_3g35002 FvH4_3g35002 FvH4_3g35010
malus_domestica	MD03G1099400.v1.1 MD03G1099500.v1.1 MD11G1113700.v1.1
prunus_persica	Prupe.6G084200_v2.0.a1 Prupe.6G084200_v2.0.a1 Prupe.6G084200_v2.0.a1 Prupe.6G084300_v2.0.a1 Prupe.6G084500_v2.0.a1
pyrus_communis	pycom03g08180 pycom03g08190 pycom11g09570
rosa_chinensis	RchiOBHm_Chr5g0062921 RchiOBHm_Chr5g0062931
rosa_laevigata	RLG00000009507 RLG00000035590 RLG00000035591
rosa_multiflora	Rmu_co7996734.1_g000001 Rmu_sc0000192.1_g000027 Rmu_sc0001738.1_g000035 Rmu_sc0003303.1_g000011 Rmu_sc0006171.1_g000008 Rmu_sc0010322.1_g000002 Rmu_sc0010322.1_g000003
rosa_roxburghii	Rroxscaffold_1G00017700 Rroxscaffold_1G00017710
rosa_rugosa	Rorug05G0352700 Rorug05G0352700 Rorug05G0352800 Rorug05G0352900
rosa_samantha	Rh5AG413800 Rh5AG413900 Rh5BG428000 Rh5BG428100 Rh5CG451600 Rh5CG451700 Rh5DG441700 Rh5DG441800
rosa_wichuraiana	Rw5G038880

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	1 cut(s)	514
AccB7I	CCANNNNNTGG	1 cut(s)	422
AccBSI	CCGCTC	1 cut(s)	185
AccI	GTMKAC	1 cut(s)	652
AciI	CCGC	5 cut(s)	41, 105, 183, 267, 430
AclWI	GGATC	2 cut(s)	528, 541
AcsI	RAATTY	3 cut(s)	569, 583, 633
AcuI	CTGAAG	2 cut(s)	29, 476
AcyI	GRCGYC	1 cut(s)	56
AfaI	GTAC	1 cut(s)	336
AfeI	AGCGCT	1 cut(s)	119
AfiI	CCNNNNNNNGG	3 cut(s)	218, 422, 738
AgsI	TTSAA	1 cut(s)	597
AjnI	CCWGG	2 cut(s)	415, 712
AluBI	AGCT	3 cut(s)	245, 449, 664
AluI	AGCT	3 cut(s)	245, 449, 664
AlwI	GGATC	2 cut(s)	528, 541
AlwNI	CAGNNNCTG	1 cut(s)	422
Ama87I	CYCGRG	1 cut(s)	186
Aor51HI	AGCGCT	1 cut(s)	119
ApeKI	GCWGC	3 cut(s)	107, 540, 661
ApoI	RAATTY	3 cut(s)	569, 583, 633
ArsI	GACNNNNNNTTYG	2 cut(s)	213, 245
Asp700I	GAANNNNTTC	1 cut(s)	733
AspLEI	GCGC	1 cut(s)	120
AspS9I	GGNCC	3 cut(s)	561, 700, 710
AsuHPI	GGTGA	3 cut(s)	15, 73, 112
AvaI	CYCGRG	1 cut(s)	186
AvaII	GGWCC	3 cut(s)	561, 700, 710
BamHI	GGATCC	1 cut(s)	533
BbsI	GAAGAC	1 cut(s)	78
BbvI	GCAGC	3 cut(s)	94, 552, 673
BccI	CCATC	2 cut(s)	128, 338
BciT130I	CCWGG	2 cut(s)	417, 714
BfaI	CTAG	2 cut(s)	239, 749
BfmI	CTRYAG	1 cut(s)	603
BfoI	RGCGCY	1 cut(s)	121
BfuAI	ACCTGC	1 cut(s)	514
BisI	GCNGC	3 cut(s)	108, 541, 662
BlsI	GCNGC	3 cut(s)	109, 542, 663
Bme1390I	CCNGG	2 cut(s)	417, 714
Bme18I	GGWCC	3 cut(s)	561, 700, 710
BmeT110I	CYCGRG	1 cut(s)	186
BmgT120I	GGNCC	3 cut(s)	561, 700, 710
BmiI	GGNNCC	6 cut(s)	33, 434, 535, 563, 701, 730
BmrFI	CCNGG	2 cut(s)	417, 714
BpiI	GAAGAC	1 cut(s)	78
BsaHI	GRCGYC	1 cut(s)	56
BsaJI	CCNNGG	1 cut(s)	713
BsaWI	WCCGGW	1 cut(s)	28
Bsc4I	CCNNNNNNNGG	3 cut(s)	218, 422, 738
Bse118I	RCCGGY	1 cut(s)	58
Bse1I	ACTGG	2 cut(s)	391, 427
BseBI	CCWGG	2 cut(s)	417, 714
BseDI	CCNNGG	1 cut(s)	713
BseGI	GGATG	1 cut(s)	747
BseLI	CCNNNNNNNGG	3 cut(s)	218, 422, 738
BseMII	CTCAG	1 cut(s)	105
BseNI	ACTGG	2 cut(s)	391, 427
BseRI	GAGGAG	1 cut(s)	25
BseXI	GCAGC	3 cut(s)	94, 552, 673
BsiHKCI	CYCGRG	1 cut(s)	186
BsiSI	CCGG	2 cut(s)	29, 59
BslFI	GGGAC	4 cut(s)	165, 234, 547, 606
BslI	CCNNNNNNNGG	3 cut(s)	218, 422, 738
BsmFI	GGGAC	4 cut(s)	165, 234, 547, 606
BsoBI	CYCGRG	1 cut(s)	186
Bsp143I	GATC	2 cut(s)	17, 533
BspACI	CCGC	5 cut(s)	41, 105, 183, 267, 430
BspCNI	CTCAG	1 cut(s)	106
BspLI	GGNNCC	6 cut(s)	33, 434, 535, 563, 701, 730
BspMAI	CTGCAG	1 cut(s)	607
BspMI	ACCTGC	1 cut(s)	514
BspPI	GGATC	2 cut(s)	528, 541
BsrBI	CCGCTC	1 cut(s)	185
BsrFI	RCCGGY	1 cut(s)	58
BsrI	ACTGG	2 cut(s)	391, 427
BssAI	RCCGGY	1 cut(s)	58
BssECI	CCNNGG	1 cut(s)	713
BssMI	GATC	2 cut(s)	17, 533
BssNI	GRCGYC	1 cut(s)	56
Bst2UI	CCWGG	2 cut(s)	417, 714
Bst4CI	ACNGT	1 cut(s)	395
BstACI	GRCGYC	1 cut(s)	56
BstDEI	CTNAG	2 cut(s)	114, 579
BstEII	GGTNACC	1 cut(s)	100
BstF5I	GGATG	1 cut(s)	747
BstH2I	RGCGCY	1 cut(s)	121
BstHHI	GCGC	1 cut(s)	120
BstKTI	GATC	2 cut(s)	20, 536
BstMBI	GATC	2 cut(s)	17, 533
BstMWI	GCNNNNNNNGC	1 cut(s)	40
BstNI	CCWGG	2 cut(s)	417, 714
BstNSI	RCATGY	1 cut(s)	287
BstPI	GGTNACC	1 cut(s)	100
BstSCI	CCNGG	2 cut(s)	415, 712
BstSFI	CTRYAG	1 cut(s)	603
BstV1I	GCAGC	3 cut(s)	94, 552, 673
BstV2I	GAAGAC	1 cut(s)	78
BstX2I	RGATCY	1 cut(s)	533
BstXI	CCANNNNNNTGG	2 cut(s)	138, 348
BstYI	RGATCY	1 cut(s)	533
BtsCI	GGATG	1 cut(s)	747
BtsIMutI	CAGTG	1 cut(s)	400
BveI	ACCTGC	1 cut(s)	514
CaiI	CAGNNNCTG	1 cut(s)	422
CfoI	GCGC	1 cut(s)	120
Cfr10I	RCCGGY	1 cut(s)	58
Cfr13I	GGNCC	3 cut(s)	561, 700, 710
CseI	GACGC	1 cut(s)	64
Csp6I	GTAC	1 cut(s)	335
CviAII	CATG	3 cut(s)	284, 313, 738
CviJI	RGCY	8 cut(s)	34, 211, 245, 367, 415, 449, 543, 664
CviKI_1	RGCY	8 cut(s)	34, 211, 245, 367, 415, 449, 543, 664
CviQI	GTAC	1 cut(s)	335
DdeI	CTNAG	2 cut(s)	114, 579
DpnI	GATC	2 cut(s)	19, 535
DpnII	GATC	2 cut(s)	17, 533
DraI	TTTAAA	1 cut(s)	301
EciI	GGCGGA	1 cut(s)	282
Eco32I	GATATC	1 cut(s)	257
Eco47I	GGWCC	3 cut(s)	561, 700, 710
Eco47III	AGCGCT	1 cut(s)	119
Eco57I	CTGAAG	2 cut(s)	29, 476
Eco88I	CYCGRG	1 cut(s)	186
Eco91I	GGTNACC	1 cut(s)	100
EcoO109I	RGGNCCY	1 cut(s)	700
EcoO65I	GGTNACC	1 cut(s)	100
EcoRI	GAATTC	1 cut(s)	583
EcoRII	CCWGG	2 cut(s)	415, 712
EcoRV	GATATC	1 cut(s)	257
FaeI	CATG	3 cut(s)	287, 316, 741
FaiI	YATR	5 cut(s)	285, 293, 314, 408, 739
FaqI	GGGAC	4 cut(s)	165, 234, 547, 606
FatI	CATG	3 cut(s)	283, 312, 737
FauI	CCCGC	1 cut(s)	190
FblI	GTMKAC	1 cut(s)	652
Fnu4HI	GCNGC	3 cut(s)	108, 541, 662
FokI	GGATG	1 cut(s)	754
Fsp4HI	GCNGC	3 cut(s)	108, 541, 662
FspBI	CTAG	2 cut(s)	239, 749
GlaI	GCGC	1 cut(s)	119
GluI	GCNGC	3 cut(s)	108, 541, 662
HaeII	RGCGCY	1 cut(s)	121
HapII	CCGG	2 cut(s)	29, 59
HgaI	GACGC	1 cut(s)	64
HhaI	GCGC	1 cut(s)	120
Hin1I	GRCGYC	1 cut(s)	56
Hin1II	CATG	3 cut(s)	287, 316, 741
Hin6I	GCGC	1 cut(s)	118
HinP1I	GCGC	1 cut(s)	118
HincII	GTYRAC	1 cut(s)	193
HindII	GTYRAC	1 cut(s)	193
HinfI	GANTC	6 cut(s)	126, 520, 556, 745, 752, 760
HpaII	CCGG	2 cut(s)	29, 59
HphI	GGTGA	3 cut(s)	15, 73, 112
Hpy166II	GTNNAC	3 cut(s)	193, 250, 653
Hpy188I	TCNGA	1 cut(s)	115
Hpy188III	TCNNGA	1 cut(s)	749
Hpy8I	GTNNAC	3 cut(s)	193, 250, 653
Hpy99I	CGWCG	2 cut(s)	165, 710
HpyAV	CCTTC	3 cut(s)	420, 666, 744
HpyCH4III	ACNGT	1 cut(s)	395
HpyCH4V	TGCA	2 cut(s)	295, 605
HpyF10VI	GCNNNNNNNGC	1 cut(s)	40
HpyF3I	CTNAG	2 cut(s)	114, 579
Hsp92I	GRCGYC	1 cut(s)	56
Hsp92II	CATG	3 cut(s)	287, 316, 741
HspAI	GCGC	1 cut(s)	118
Kzo9I	GATC	2 cut(s)	17, 533
LmnI	GCTCC	1 cut(s)	31
Lsp1109I	GCAGC	3 cut(s)	94, 552, 673
MaeI	CTAG	2 cut(s)	239, 749
MaeIII	GTNAC	3 cut(s)	100, 389, 395
MalI	GATC	2 cut(s)	19, 535
MbiI	CCGCTC	1 cut(s)	185
MboI	GATC	2 cut(s)	17, 533
MboII	GAAGA	6 cut(s)	27, 80, 83, 318, 482, 559
MflI	RGATCY	1 cut(s)	533
MluCI	AATT	7 cut(s)	88, 296, 354, 569, 583, 633, 723
MlyI	GAGTC	2 cut(s)	120, 761
MnlI	CCTC	5 cut(s)	3, 142, 309, 352, 713
MroXI	GAANNNNTTC	1 cut(s)	733
MseI	TTAA	2 cut(s)	300, 693
MspA1I	CMGCKG	1 cut(s)	107
MspI	CCGG	2 cut(s)	29, 59
MspR9I	CCNGG	2 cut(s)	417, 714
MvaI	CCWGG	2 cut(s)	417, 714
MwoI	GCNNNNNNNGC	1 cut(s)	40
NdeII	GATC	2 cut(s)	17, 533
NlaIII	CATG	3 cut(s)	287, 316, 741
NlaIV	GGNNCC	6 cut(s)	33, 434, 535, 563, 701, 730
NmuCI	GTSAC	3 cut(s)	100, 389, 395
NspI	RCATGY	1 cut(s)	287
PaeR7I	CTCGAG	1 cut(s)	186
PdmI	GAANNNNTTC	1 cut(s)	733
PfeI	GAWTC	4 cut(s)	520, 556, 745, 760
PflMI	CCANNNNNTGG	1 cut(s)	422
PkrI	GCNGC	3 cut(s)	109, 542, 663
PleI	GAGTC	2 cut(s)	120, 760
PpsI	GAGTC	2 cut(s)	120, 760
PpuMI	RGGWCCY	1 cut(s)	700
Psp5II	RGGWCCY	1 cut(s)	700
Psp6I	CCWGG	2 cut(s)	415, 712
PspEI	GGTNACC	1 cut(s)	100
PspGI	CCWGG	2 cut(s)	415, 712
PspN4I	GGNNCC	6 cut(s)	33, 434, 535, 563, 701, 730
PspPI	GGNCC	3 cut(s)	561, 700, 710
PspPPI	RGGWCCY	1 cut(s)	700
PspXI	VCTCGAGB	1 cut(s)	186
PstI	CTGCAG	1 cut(s)	607
PstNI	CAGNNNCTG	1 cut(s)	422
PsuI	RGATCY	1 cut(s)	533
RsaI	GTAC	1 cut(s)	336
RsaNI	GTAC	1 cut(s)	335
SaqAI	TTAA	2 cut(s)	300, 693
SatI	GCNGC	3 cut(s)	108, 541, 662
Sau3AI	GATC	2 cut(s)	17, 533
Sau96I	GGNCC	3 cut(s)	561, 700, 710
SchI	GAGTC	2 cut(s)	120, 761
ScrFI	CCNGG	2 cut(s)	417, 714
SetI	ASST	8 cut(s)	200, 247, 320, 451, 465, 508, 658, 666
SfcI	CTRYAG	1 cut(s)	603
Sfr274I	CTCGAG	1 cut(s)	186
SgrAI	CRCCGGYG	1 cut(s)	58
SinI	GGWCC	3 cut(s)	561, 700, 710
SlaI	CTCGAG	1 cut(s)	186
SmlI	CTYRAG	1 cut(s)	186
SmoI	CTYRAG	1 cut(s)	186
Sse9I	AATT	7 cut(s)	88, 296, 354, 569, 583, 633, 723
SsiI	CCGC	5 cut(s)	41, 105, 183, 267, 430
SspI	AATATT	1 cut(s)	670
SspMI	CTAG	2 cut(s)	239, 749
StyD4I	CCNGG	2 cut(s)	415, 712
TaaI	ACNGT	1 cut(s)	395
TaqI	TCGA	2 cut(s)	187, 527
TaqII	GACCGA	2 cut(s)	549, 698
TasI	AATT	7 cut(s)	88, 296, 354, 569, 583, 633, 723
TatI	WGTACW	1 cut(s)	334
TfiI	GAWTC	4 cut(s)	520, 556, 745, 760
Tru1I	TTAA	2 cut(s)	300, 693
Tru9I	TTAA	2 cut(s)	300, 693
TscAI	CASTG	1 cut(s)	400
TseFI	GTSAC	3 cut(s)	100, 389, 395
TseI	GCWGC	3 cut(s)	107, 540, 661
Tsp45I	GTSAC	3 cut(s)	100, 389, 395
TspDTI	ATGAA	5 cut(s)	17, 193, 492, 576, 726
TspGWI	ACGGA	2 cut(s)	138, 425
TspRI	CASTG	1 cut(s)	400
Van91I	CCANNNNNTGG	1 cut(s)	422
VpaK11BI	GGWCC	3 cut(s)	561, 700, 710
XapI	RAATTY	3 cut(s)	569, 583, 633
XbaI	TCTAGA	1 cut(s)	748
XceI	RCATGY	1 cut(s)	287
XhoI	CTCGAG	1 cut(s)	186
XmiI	GTMKAC	1 cut(s)	652
XmnI	GAANNNNTTC	1 cut(s)	733
XspI	CTAG	2 cut(s)	239, 749

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