Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr2B

Orthogroup ID

OG0001397

Physical Location & Seq

Genomic Coordinates Reverse (-)

54292225 .. 54297349

Gene Structure 5125 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh2BG383100.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 921 bp

ATGGAGAACAAAGTGGACGAGGTTGTTGCTGTTGAGCTACCTGCTCCTCCTGCTTGGAAGAAGAAGATTTTACCCAAGAAGGGAGTTACACCGAGGAAAAATGATGTCACATTCATTTCTCCAACTGGGGAGGAGATTAACAATAAAAAACAACTGGAGCAGTACCTAAAATCACATCCTGGTAACCCTGCAATGTCGGAGTTTGATTGGAGCACAGGTGAAACCCCTAGGAGATCATCCAGGATCAGTGAAAAGGTCAAGTGGACTCCCCCACCGGAGAATGAGCCTCCAAAGAAAAGAGGCCGGAAATCATCAGGTTCAAAGGACAATAAAGTGGAGACTACTGATGCAGAACATGGTACGAATGACACTGAAATGAAAGATGCAGAGGTAGCTGAGAAGAAAGATGGAGAAGCTGAGAAACAGGTTGAGAATGGAGGAAAAGCACCAGAAGAAACTGACCAAATTAAGACCACAAATACCAAAACTGAAGAAACTATCCCAGAGGATGGTAAGGAGACTCAGACTCATGTTATGGAAACTCAAGGTGAAGAGAAAGATGAAAAGTCAAACAGTGTTGCATCAGAGGAACAACCTGCTGAAGTAGCTTTGGCTACTGAGGGAACTAAAAACAACAAGGAAAAGGTGCCACAAGCTGAGGGAGAGGAAGGAAATGGCTCTACTGACAAGAAACAGGACAACACAACAGCTGCTGTGACCATTGAAGAAAATGGAGCACCAGAGAAAGAGAATCTGAAGGGAATAGCACCATCTGTGGAGGAAGAGATCAAAGGGAAACAAGAGGTCGATGGGAAAAGCGATGCTCCAGCTGAGGAGAAAGTTAAGATAAAGGATGGGGAGGTAGTTGAAAATGGTAAGGTTGACCAAGTGGTTAAACCTGATGCTGCACAACATCCATAG

Functional Annotation

Gene Ontology

Molecular Function
Biological Process
Cellular Component

GO:0000166 GO:0003674 GO:0003676 GO:0003677 GO:0005488 GO:0005575 GO:0005622 GO:0005623 GO:0005634 GO:0005737 GO:0005829 GO:0008327 GO:0036094 GO:0043226 GO:0043227 GO:0043229 GO:0043231 GO:0043565 GO:0044424 GO:0044444 GO:0044464 GO:0097159 GO:1901265 GO:1901363

KEGG Pathways

Metabolic & Signaling

No pathways identified.

Pfam Domains

Protein Families

MBD

Protein Analysis

306

Amino Acids

33.48

Weight (kDa)

4.89

Isoelectric Point (pI)

42.56

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MBD	PF01429	9 - 77	3e-14	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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Publication-ready

iTOL Interactive Tree Of Life · Most popular EvolView Flexible annotations MEGA Desktop phylogenetics suite FigTree Desktop tree editor

Orthologous Genes (Group: OG0001397)

Species	Orthologous Gene IDs
arabidopsis_thaliana	AT3G15790 AT3G15790 AT3G15790
fragaria_vesca	FvH4_1g03020 FvH4_1g03020 FvH4_1g03020 FvH4_1g03020 FvH4_6g29820 FvH4_6g29820 FvH4_6g29820 FvH4_6g29820 FvH4_6g29820 FvH4_6g29820
malus_domestica	MD00G1123000.v1.1 MD02G1029600.v1.1 MD15G1171000.v1.1 MD17G1210700.v1.1
prunus_persica	Prupe.3G086000_v2.0.a1 Prupe.7G245300_v2.0.a1
pyrus_communis	pycom02g02450 pycom09g14100 pycom15g15250 pycom17g21570
rosa_chinensis	RchiOBHm_Chr2g0088151 RchiOBHm_Chr2g0135641
rosa_laevigata	RLG00000015926 RLG00000019474
rosa_multiflora	Rmu_co8260895.1_g000001 Rmu_sc0002398.1_g000036 Rmu_sc0003275.1_g000050
rosa_roxburghii	Rroxscaffold_2G00109020 Rroxscaffold_2G00152920 Rroxscaffold_6G00395860 Rroxscaffold_7G00180210
rosa_rugosa	Rorug01G0481300 Rorug02G0325200
rosa_samantha	Rh2AG036300 Rh2AG376800 Rh2BG035500 Rh2BG076400 Rh2BG383100 Rh2CG036700 Rh2CG078600 Rh2CG362500 Rh2DG036000 Rh2DG399200 Rh5DG523600
rosa_wichuraiana	Rw1G013660 Rw2G002860 Rw2G030730 Rw4G021240 Rw4G021900 Rw7G017350

Restriction Enzyme Sites

1 / 10

Enzyme	Recognition Site	Cut Count	Positions (bp)
Acc36I	ACCTGC	2 cut(s)	49, 604
AccB1I	GGYRCC	1 cut(s)	646
AccB7I	CCANNNNNTGG	1 cut(s)	509
AclWI	GGATC	1 cut(s)	251
AcuI	CTGAAG	3 cut(s)	510, 621, 776
AfaI	GTAC	2 cut(s)	164, 361
AfiI	CCNNNNNNNGG	2 cut(s)	80, 509
AgsI	TTSAA	3 cut(s)	321, 725, 869
AjnI	CCWGG	2 cut(s)	178, 239
AluBI	AGCT	7 cut(s)	37, 395, 416, 608, 656, 710, 830
AluI	AGCT	7 cut(s)	37, 395, 416, 608, 656, 710, 830
Alw21I	GWGCWC	2 cut(s)	215, 739
Alw26I	GTCTC	2 cut(s)	332, 512
AlwI	GGATC	1 cut(s)	251
AlwNI	CAGNNNCTG	1 cut(s)	713
AoxI	GGCC	1 cut(s)	301
ApeKI	GCWGC	2 cut(s)	710, 905
AspA2I	CCTAGG	1 cut(s)	227
AsuHPI	GGTGA	2 cut(s)	230, 560
AvrII	CCTAGG	1 cut(s)	227
BanI	GGYRCC	1 cut(s)	646
Bbv12I	GWGCWC	2 cut(s)	215, 739
BbvCI	CCTCAGC	2 cut(s)	657, 831
BbvI	GCAGC	2 cut(s)	697, 892
BccI	CCATC	5 cut(s)	401, 503, 778, 803, 848
BcgI	CGANNNNNNTGC	2 cut(s)	8, 42
BciT130I	CCWGG	2 cut(s)	180, 241
BcoDI	GTCTC	2 cut(s)	332, 512
BfaI	CTAG	1 cut(s)	228
BfuAI	ACCTGC	2 cut(s)	49, 604
BisI	GCNGC	2 cut(s)	711, 906
BlnI	CCTAGG	1 cut(s)	227
BlsI	GCNGC	2 cut(s)	712, 907
Bme1390I	CCNGG	2 cut(s)	180, 241
BmiI	GGNNCC	1 cut(s)	648
BmrFI	CCNGG	2 cut(s)	180, 241
BmrI	ACTGGG	1 cut(s)	135
BmsI	GCATC	5 cut(s)	337, 373, 590, 811, 892
BmuI	ACTGGG	1 cut(s)	135
BpmI	CTGGAG	2 cut(s)	176, 810
Bpu10I	CCTNAGC	2 cut(s)	657, 831
BpuEI	CTTGAG	1 cut(s)	528
BsaJI	CCNNGG	2 cut(s)	92, 227
BsaWI	WCCGGW	1 cut(s)	274
BsaXI	ACNNNNNCTCC	2 cut(s)	202, 232
Bsc4I	CCNNNNNNNGG	2 cut(s)	80, 509
Bse1I	ACTGG	2 cut(s)	130, 159
Bse3DI	GCAATG	1 cut(s)	198
BseBI	CCWGG	2 cut(s)	180, 241
BseDI	CCNNGG	2 cut(s)	92, 227
BseGI	GGATG	5 cut(s)	175, 236, 514, 859, 913
BseLI	CCNNNNNNNGG	2 cut(s)	80, 509
BseMI	GCAATG	1 cut(s)	198
BseMII	CTCAG	6 cut(s)	387, 408, 536, 609, 648, 822
BseNI	ACTGG	2 cut(s)	130, 159
BseRI	GAGGAG	3 cut(s)	36, 146, 848
BseXI	GCAGC	2 cut(s)	697, 892
BsgI	GTGCAG	1 cut(s)	891
BshFI	GGCC	1 cut(s)	303
BshNI	GGYRCC	1 cut(s)	646
BsiHKAI	GWGCWC	2 cut(s)	215, 739
BsiSI	CCGG	2 cut(s)	275, 304
BslI	CCNNNNNNNGG	2 cut(s)	80, 509
BsmAI	GTCTC	2 cut(s)	332, 512
BsnI	GGCC	1 cut(s)	303
Bsp1286I	GDGCHC	2 cut(s)	215, 739
Bsp143I	GATC	3 cut(s)	233, 243, 786
BspANI	GGCC	1 cut(s)	303
BspCNI	CTCAG	6 cut(s)	388, 409, 535, 610, 649, 823
BspLI	GGNNCC	1 cut(s)	648
BspMI	ACCTGC	2 cut(s)	49, 604
BspPI	GGATC	1 cut(s)	251
BspT107I	GGYRCC	1 cut(s)	646
BsrDI	GCAATG	1 cut(s)	198
BsrI	ACTGG	2 cut(s)	130, 159
BssECI	CCNNGG	2 cut(s)	92, 227
BssMI	GATC	3 cut(s)	233, 243, 786
BssT1I	CCWWGG	1 cut(s)	227
Bst2UI	CCWGG	2 cut(s)	180, 241
Bst4CI	ACNGT	1 cut(s)	575
Bst6I	CTCTTC	2 cut(s)	546, 777
BstDEI	CTNAG	6 cut(s)	396, 417, 522, 618, 657, 831
BstEII	GGTNACC	1 cut(s)	182
BstF5I	GGATG	5 cut(s)	175, 236, 514, 859, 913
BstKTI	GATC	3 cut(s)	236, 246, 789
BstMAI	GTCTC	2 cut(s)	332, 512
BstMBI	GATC	3 cut(s)	233, 243, 786
BstMWI	GCNNNNNNNGC	3 cut(s)	50, 392, 605
BstNI	CCWGG	2 cut(s)	180, 241
BstPI	GGTNACC	1 cut(s)	182
BstSCI	CCNGG	2 cut(s)	178, 239
BstV1I	GCAGC	2 cut(s)	697, 892
BsuRI	GGCC	1 cut(s)	303
BtgZI	GCGATG	1 cut(s)	834
BtsCI	GGATG	5 cut(s)	175, 236, 514, 859, 913
BtsIMutI	CAGTG	3 cut(s)	253, 369, 580
BveI	ACCTGC	2 cut(s)	49, 604
CaiI	CAGNNNCTG	1 cut(s)	713
Csp6I	GTAC	2 cut(s)	163, 360
CviAII	CATG	2 cut(s)	356, 530
CviQI	GTAC	2 cut(s)	163, 360
DdeI	CTNAG	6 cut(s)	396, 417, 522, 618, 657, 831
DpnI	GATC	3 cut(s)	235, 245, 788
DpnII	GATC	3 cut(s)	233, 243, 786
Eam1104I	CTCTTC	2 cut(s)	546, 777
EarI	CTCTTC	2 cut(s)	546, 777
Eco130I	CCWWGG	1 cut(s)	227
Eco57I	CTGAAG	3 cut(s)	510, 621, 776
Eco91I	GGTNACC	1 cut(s)	182
EcoO65I	GGTNACC	1 cut(s)	182
EcoRII	CCWGG	2 cut(s)	178, 239
EcoT14I	CCWWGG	1 cut(s)	227
ErhI	CCWWGG	1 cut(s)	227
FaeI	CATG	2 cut(s)	359, 533
FaiI	YATR	4 cut(s)	357, 531, 536, 919
FatI	CATG	2 cut(s)	355, 529
Fnu4HI	GCNGC	2 cut(s)	711, 906
FokI	GGATG	5 cut(s)	162, 223, 521, 866, 900
Fsp4HI	GCNGC	2 cut(s)	711, 906
FspBI	CTAG	1 cut(s)	228
GluI	GCNGC	2 cut(s)	711, 906
GsuI	CTGGAG	2 cut(s)	176, 810
HaeIII	GGCC	1 cut(s)	303
HapII	CCGG	2 cut(s)	275, 304
Hin1II	CATG	2 cut(s)	359, 533
HincII	GTYRAC	1 cut(s)	883
HindII	GTYRAC	1 cut(s)	883
HinfI	GANTC	4 cut(s)	265, 520, 526, 751
HpaII	CCGG	2 cut(s)	275, 304
HphI	GGTGA	2 cut(s)	230, 560
Hpy166II	GTNNAC	3 cut(s)	16, 264, 883
Hpy188I	TCNGA	4 cut(s)	199, 525, 586, 756
Hpy8I	GTNNAC	3 cut(s)	16, 264, 883
HpyAV	CCTTC	3 cut(s)	73, 662, 751
HpyCH4III	ACNGT	1 cut(s)	575
HpyCH4V	TGCA	5 cut(s)	191, 350, 386, 581, 908
HpyF10VI	GCNNNNNNNGC	3 cut(s)	50, 392, 605
HpyF3I	CTNAG	6 cut(s)	396, 417, 522, 618, 657, 831
Hsp92II	CATG	2 cut(s)	359, 533
Kzo9I	GATC	3 cut(s)	233, 243, 786
LmnI	GCTCC	5 cut(s)	49, 157, 210, 734, 829
Lsp1109I	GCAGC	2 cut(s)	697, 892
LweI	GCATC	5 cut(s)	337, 373, 590, 811, 892
MaeI	CTAG	1 cut(s)	228
MaeIII	GTNAC	4 cut(s)	85, 106, 182, 715
MalI	GATC	3 cut(s)	235, 245, 788
MboI	GATC	3 cut(s)	233, 243, 786
MboII	GAAGA	9 cut(s)	70, 73, 76, 412, 464, 503, 563, 737, 794
MhlI	GDGCHC	2 cut(s)	215, 739
MluCI	AATT	1 cut(s)	465
MlyI	GAGTC	3 cut(s)	259, 514, 520
MmeI	TCCRAC	2 cut(s)	146, 177
MseI	TTAA	4 cut(s)	138, 468, 843, 894
MslI	CAYNNNNRTG	1 cut(s)	374
MspA1I	CMGCKG	2 cut(s)	710, 830
MspI	CCGG	2 cut(s)	275, 304
MspR9I	CCNGG	2 cut(s)	180, 241
MvaI	CCWGG	2 cut(s)	180, 241
MwoI	GCNNNNNNNGC	3 cut(s)	50, 392, 605
NdeII	GATC	3 cut(s)	233, 243, 786
NlaIII	CATG	2 cut(s)	359, 533
NlaIV	GGNNCC	1 cut(s)	648
NmuCI	GTSAC	2 cut(s)	106, 715
PfeI	GAWTC	1 cut(s)	751
PflMI	CCANNNNNTGG	1 cut(s)	509
PfoI	TCCNGGA	1 cut(s)	239
PkrI	GCNGC	2 cut(s)	712, 907
PleI	GAGTC	3 cut(s)	259, 514, 520
PpsI	GAGTC	3 cut(s)	259, 514, 520
Psp6I	CCWGG	2 cut(s)	178, 239
PspEI	GGTNACC	1 cut(s)	182
PspGI	CCWGG	2 cut(s)	178, 239
PspN4I	GGNNCC	1 cut(s)	648
PstNI	CAGNNNCTG	1 cut(s)	713
PvuII	CAGCTG	2 cut(s)	710, 830
RsaI	GTAC	2 cut(s)	164, 361
RsaNI	GTAC	2 cut(s)	163, 360
RseI	CAYNNNNRTG	1 cut(s)	374
SaqAI	TTAA	4 cut(s)	138, 468, 843, 894
SatI	GCNGC	2 cut(s)	711, 906
Sau3AI	GATC	3 cut(s)	233, 243, 786
SchI	GAGTC	3 cut(s)	259, 514, 520
ScrFI	CCNGG	2 cut(s)	180, 241
SduI	GDGCHC	2 cut(s)	215, 739
SfaNI	GCATC	5 cut(s)	337, 373, 590, 811, 892
SmiMI	CAYNNNNRTG	1 cut(s)	374
SmlI	CTYRAG	1 cut(s)	543
SmoI	CTYRAG	1 cut(s)	543
Sse9I	AATT	1 cut(s)	465
SspMI	CTAG	1 cut(s)	228
StyD4I	CCNGG	2 cut(s)	178, 239
StyI	CCWWGG	1 cut(s)	227
TaaI	ACNGT	1 cut(s)	575
TaqI	TCGA	1 cut(s)	807
TasI	AATT	1 cut(s)	465
TfiI	GAWTC	1 cut(s)	751
Tru1I	TTAA	4 cut(s)	138, 468, 843, 894
Tru9I	TTAA	4 cut(s)	138, 468, 843, 894
TscAI	CASTG	3 cut(s)	253, 376, 580
TseFI	GTSAC	2 cut(s)	106, 715
TseI	GCWGC	2 cut(s)	710, 905
Tsp45I	GTSAC	2 cut(s)	106, 715
TspDTI	ATGAA	3 cut(s)	103, 392, 576
TspRI	CASTG	3 cut(s)	253, 376, 580
Van91I	CCANNNNNTGG	1 cut(s)	509
XmaJI	CCTAGG	1 cut(s)	227
XspI	CTAG	1 cut(s)	228

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