Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0002318

Physical Location & Seq

Genomic Coordinates Reverse (-)

71453753 .. 71457957

Gene Structure 4205 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG413900.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 687 bp

ATGAAGAGGAGGAGAAGATCATCACCACCGGAGCCACTTCCGCTTCAGGCATTGACGCCGGTGAAAGAAGAAGACGACCCCAGAACAAATTGGCAGTTGGTGACCGCTGCTTCTGAGCGCTACGGACTCCCAGATGGTTGGTGCGTTGAGGAAATCCCCCGTCGCTTTAGCCGCTTCCGTCCCGCTCGAGTTGACAGGTATTTCATTGAGCCTGACACGGGACAGAAGTTTCGTTCACTAGTAGCTGTCCACAGATATCTAACAGGCGGACAAGTTGATACACATGCCATTATGCAATTTAAACCACACACCATGAGGTGTAGTTCTTCCTTTGTACTACCACATGGTTGGGAAATTGAGGAAAAGCCACGAAAGAATACTAATACTGGTCACAGTGACAAGTATTATATTGAGCCAGGAACTGGAAGGCGGTTCCGTTCTTTAGTAGCTGTTGAGAGATACCTAACAGAAGAAAATGAACACACTCCACTTCAGGCATTGATACCTGCCAATAAGTTGATTCTTTCGAGTGGATCCAGCAGCCAGAAGAAAAAGATTCGGTCCCTGAAATTTGTTTCTAAGAATTCATCACATTCAAACGTATGTAATAGCACACTCAATGCATCAAGGCTTAACACTTATTCTGCAGGGAGTTTGATAAACTATATAATTATGTTTTCTAATTAG

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

228

Amino Acids

26.14

Weight (kDa)

9.89

Isoelectric Point (pI)

56.99

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MBD	PF01429	40 - 100	5.1e-07	Methyl-CpG binding domain
MBD	PF01429	111 - 163	2.3e-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
AciI	CCGC	6 cut(s)	41, 105, 172, 183, 267, 430
AclWI	GGATC	2 cut(s)	528, 541
AcsI	RAATTY	2 cut(s)	569, 583
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	2 cut(s)	218, 422
AgsI	TTSAA	1 cut(s)	597
AhlI	ACTAGT	1 cut(s)	238
AjnI	CCWGG	1 cut(s)	415
AluBI	AGCT	2 cut(s)	245, 449
AluI	AGCT	2 cut(s)	245, 449
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	2 cut(s)	107, 540
ApoI	RAATTY	2 cut(s)	569, 583
ArsI	GACNNNNNNTTYG	2 cut(s)	213, 245
AspLEI	GCGC	1 cut(s)	120
AspS9I	GGNCC	1 cut(s)	561
AsuHPI	GGTGA	3 cut(s)	15, 73, 112
AvaI	CYCGRG	1 cut(s)	186
AvaII	GGWCC	1 cut(s)	561
BamHI	GGATCC	1 cut(s)	533
BbsI	GAAGAC	1 cut(s)	78
BbvI	GCAGC	2 cut(s)	94, 552
BccI	CCATC	1 cut(s)	128
BciT130I	CCWGG	1 cut(s)	417
BcuI	ACTAGT	1 cut(s)	238
BfaI	CTAG	1 cut(s)	239
BfmI	CTRYAG	1 cut(s)	645
BfoI	RGCGCY	1 cut(s)	121
BfuAI	ACCTGC	1 cut(s)	514
BisI	GCNGC	3 cut(s)	108, 172, 541
BlsI	GCNGC	3 cut(s)	109, 173, 542
Bme1390I	CCNGG	1 cut(s)	417
Bme18I	GGWCC	1 cut(s)	561
BmeT110I	CYCGRG	1 cut(s)	186
BmgT120I	GGNCC	1 cut(s)	561
BmiI	GGNNCC	4 cut(s)	33, 434, 535, 563
BmrFI	CCNGG	1 cut(s)	417
BmsI	GCATC	1 cut(s)	632
BpiI	GAAGAC	1 cut(s)	78
BsaHI	GRCGYC	1 cut(s)	56
BsaWI	WCCGGW	1 cut(s)	28
Bsc4I	CCNNNNNNNGG	2 cut(s)	218, 422
Bse118I	RCCGGY	1 cut(s)	58
Bse1I	ACTGG	2 cut(s)	391, 427
BseBI	CCWGG	1 cut(s)	417
BseLI	CCNNNNNNNGG	2 cut(s)	218, 422
BseMII	CTCAG	1 cut(s)	105
BseNI	ACTGG	2 cut(s)	391, 427
BseRI	GAGGAG	2 cut(s)	22, 25
BseXI	GCAGC	2 cut(s)	94, 552
BsiHKCI	CYCGRG	1 cut(s)	186
BsiSI	CCGG	2 cut(s)	29, 59
BslFI	GGGAC	3 cut(s)	165, 234, 547
BslI	CCNNNNNNNGG	2 cut(s)	218, 422
BsmFI	GGGAC	3 cut(s)	165, 234, 547
BsoBI	CYCGRG	1 cut(s)	186
Bsp143I	GATC	2 cut(s)	17, 533
BspACI	CCGC	6 cut(s)	41, 105, 172, 183, 267, 430
BspCNI	CTCAG	1 cut(s)	106
BspLI	GGNNCC	4 cut(s)	33, 434, 535, 563
BspMAI	CTGCAG	1 cut(s)	649
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
BssMI	GATC	2 cut(s)	17, 533
BssNI	GRCGYC	1 cut(s)	56
Bst2UI	CCWGG	1 cut(s)	417
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
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	2 cut(s)	40, 171
BstNI	CCWGG	1 cut(s)	417
BstNSI	RCATGY	1 cut(s)	287
BstPI	GGTNACC	1 cut(s)	100
BstSCI	CCNGG	1 cut(s)	415
BstSFI	CTRYAG	1 cut(s)	645
BstV1I	GCAGC	2 cut(s)	94, 552
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
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	1 cut(s)	561
CseI	GACGC	1 cut(s)	64
Csp6I	GTAC	1 cut(s)	335
CviAII	CATG	3 cut(s)	284, 313, 344
CviJI	RGCY	9 cut(s)	34, 171, 211, 245, 367, 415, 449, 543, 631
CviKI_1	RGCY	9 cut(s)	34, 171, 211, 245, 367, 415, 449, 543, 631
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	1 cut(s)	561
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
EcoO65I	GGTNACC	1 cut(s)	100
EcoRI	GAATTC	1 cut(s)	583
EcoRII	CCWGG	1 cut(s)	415
EcoRV	GATATC	1 cut(s)	257
EcoT22I	ATGCAT	1 cut(s)	625
FaeI	CATG	3 cut(s)	287, 316, 347
FaiI	YATR	9 cut(s)	285, 293, 314, 345, 408, 604, 666, 668, 674
FaqI	GGGAC	3 cut(s)	165, 234, 547
FatI	CATG	3 cut(s)	283, 312, 343
FauI	CCCGC	1 cut(s)	190
Fnu4HI	GCNGC	3 cut(s)	108, 172, 541
Fsp4HI	GCNGC	3 cut(s)	108, 172, 541
FspBI	CTAG	1 cut(s)	239
GlaI	GCGC	1 cut(s)	119
GluI	GCNGC	3 cut(s)	108, 172, 541
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, 347
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	3 cut(s)	126, 520, 556
HpaII	CCGG	2 cut(s)	29, 59
HphI	GGTGA	3 cut(s)	15, 73, 112
Hpy166II	GTNNAC	3 cut(s)	193, 236, 250
Hpy188I	TCNGA	1 cut(s)	115
Hpy8I	GTNNAC	3 cut(s)	193, 236, 250
Hpy99I	CGWCG	1 cut(s)	165
HpyAV	CCTTC	1 cut(s)	420
HpyCH4III	ACNGT	1 cut(s)	395
HpyCH4IV	ACGT	1 cut(s)	600
HpyCH4V	TGCA	3 cut(s)	295, 623, 647
HpyF10VI	GCNNNNNNNGC	2 cut(s)	40, 171
HpyF3I	CTNAG	2 cut(s)	114, 579
HpySE526I	ACGT	1 cut(s)	600
Hsp92I	GRCGYC	1 cut(s)	56
Hsp92II	CATG	3 cut(s)	287, 316, 347
HspAI	GCGC	1 cut(s)	118
Kzo9I	GATC	2 cut(s)	17, 533
LmnI	GCTCC	1 cut(s)	31
Lsp1109I	GCAGC	2 cut(s)	94, 552
LweI	GCATC	1 cut(s)	632
MaeI	CTAG	1 cut(s)	239
MaeII	ACGT	1 cut(s)	600
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	7 cut(s)	16, 27, 80, 83, 318, 482, 559
MflI	RGATCY	1 cut(s)	533
MluCI	AATT	7 cut(s)	88, 296, 354, 569, 583, 669, 682
MlyI	GAGTC	1 cut(s)	120
MnlI	CCTC	4 cut(s)	3, 142, 309, 352
Mph1103I	ATGCAT	1 cut(s)	625
MseI	TTAA	2 cut(s)	300, 633
MspA1I	CMGCKG	1 cut(s)	107
MspI	CCGG	2 cut(s)	29, 59
MspR9I	CCNGG	1 cut(s)	417
MvaI	CCWGG	1 cut(s)	417
MwoI	GCNNNNNNNGC	2 cut(s)	40, 171
NdeII	GATC	2 cut(s)	17, 533
NlaIII	CATG	3 cut(s)	287, 316, 347
NlaIV	GGNNCC	4 cut(s)	33, 434, 535, 563
NmuCI	GTSAC	3 cut(s)	100, 389, 395
NsiI	ATGCAT	1 cut(s)	625
NspI	RCATGY	1 cut(s)	287
PaeR7I	CTCGAG	1 cut(s)	186
PfeI	GAWTC	2 cut(s)	520, 556
PflMI	CCANNNNNTGG	1 cut(s)	422
PkrI	GCNGC	3 cut(s)	109, 173, 542
PleI	GAGTC	1 cut(s)	120
PpsI	GAGTC	1 cut(s)	120
Psp6I	CCWGG	1 cut(s)	415
PspEI	GGTNACC	1 cut(s)	100
PspGI	CCWGG	1 cut(s)	415
PspN4I	GGNNCC	4 cut(s)	33, 434, 535, 563
PspPI	GGNCC	1 cut(s)	561
PspXI	VCTCGAGB	1 cut(s)	186
PstI	CTGCAG	1 cut(s)	649
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, 633
SatI	GCNGC	3 cut(s)	108, 172, 541
Sau3AI	GATC	2 cut(s)	17, 533
Sau96I	GGNCC	1 cut(s)	561
SchI	GAGTC	1 cut(s)	120
ScrFI	CCNGG	1 cut(s)	417
SetI	ASST	7 cut(s)	200, 247, 320, 451, 465, 508, 603
SfaNI	GCATC	1 cut(s)	632
SfcI	CTRYAG	1 cut(s)	645
Sfr274I	CTCGAG	1 cut(s)	186
SgrAI	CRCCGGYG	1 cut(s)	58
SinI	GGWCC	1 cut(s)	561
SlaI	CTCGAG	1 cut(s)	186
SmlI	CTYRAG	1 cut(s)	186
SmoI	CTYRAG	1 cut(s)	186
SpeI	ACTAGT	1 cut(s)	238
Sse9I	AATT	7 cut(s)	88, 296, 354, 569, 583, 669, 682
SsiI	CCGC	6 cut(s)	41, 105, 172, 183, 267, 430
SspMI	CTAG	1 cut(s)	239
StyD4I	CCNGG	1 cut(s)	415
TaaI	ACNGT	1 cut(s)	395
TaiI	ACGT	1 cut(s)	603
TaqI	TCGA	2 cut(s)	187, 527
TaqII	GACCGA	1 cut(s)	549
TasI	AATT	7 cut(s)	88, 296, 354, 569, 583, 669, 682
TatI	WGTACW	1 cut(s)	334
TauI	GCSGC	1 cut(s)	174
TfiI	GAWTC	2 cut(s)	520, 556
Tru1I	TTAA	2 cut(s)	300, 633
Tru9I	TTAA	2 cut(s)	300, 633
TscAI	CASTG	1 cut(s)	400
TseFI	GTSAC	3 cut(s)	100, 389, 395
TseI	GCWGC	2 cut(s)	107, 540
Tsp45I	GTSAC	3 cut(s)	100, 389, 395
TspDTI	ATGAA	4 cut(s)	17, 193, 492, 576
TspGWI	ACGGA	3 cut(s)	138, 167, 425
TspRI	CASTG	1 cut(s)	400
Van91I	CCANNNNNTGG	1 cut(s)	422
VpaK11BI	GGWCC	1 cut(s)	561
XapI	RAATTY	2 cut(s)	569, 583
XceI	RCATGY	1 cut(s)	287
XhoI	CTCGAG	1 cut(s)	186
XspI	CTAG	1 cut(s)	239
Zsp2I	ATGCAT	1 cut(s)	625

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