Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5D

Orthogroup ID

OG0002318

Physical Location & Seq

Genomic Coordinates Reverse (-)

70779719 .. 70782573

Gene Structure 2855 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5DG441700.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 888 bp

ATGAACACACCCAAATCATCATCGCCGGAGCCAATTCCACTGATGACGGTGACTCCGGCAAAGGAAGAAGACCAACCCAGAAGCTCTAGGCAACTGCAATTGGTCACTGCTTCGCGCTTTGGACTCCCAGATGGTTGGTCTGTTGAGGAAAGGCCCCGTCGCTCCAGCCAAACAGTTGACAAGTATTACATTGAGCTTGACACGGGACTGAAATTTCGTTCACTGGCAGCTGCCCGCAGATACCTAACAGATGGGCAAATTGATACACGTACCAGGAGAGAAAAATCAGGCAGTCAAAGCACAATGCAATCCTTCAAGAGAAGTTCTTCCTTCACACTACCAGATGGTTGGGAAATTGAGGAAAGGCCGCGAAAGAATACTAATTCTAGTCATAGTGACAAGTATTATATTGAGCCAGGGACTGGAAAGCGGTTTCGTTCTTTAATATCTGTTGAGAGATACCTAACAGAAGAAATTGAACACACTCCACTTCAGGCATTGATGCCTGCCAATAAGTCCAATCTTTCAAGTAGTTCTGGCAGTCAGAAGAAGAAAATCAGGTCCCTGGAATTAATTTCTAAGCATTCACCATGTTCGAATGAATGTTATAATAGCACACTTGATGCAATGAGGCTCAACACTTATTCTACACCTGAAAAGCATTCTAGTTCTCCGAAGAAAAGTATTTCTGGGGAGACGAGTAGACCCTCAGAGCTCACTAATGGCAGCCCACCAACAAAAGTTAAATGGGTTCTCGCCGGTCCTGGGGGGAATATGTGGAACCCCTTCATAGATGACTCTAGGGTCGCTGATTCTGTAAAGCAAATGTGGTCTGAGATTTTCAAGTCATCAATCTATAACGAAAACGCAAAGGCACCAAGGTCTTAA

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

295

Amino Acids

33.24

Weight (kDa)

9.57

Isoelectric Point (pI)

73.92

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MBD	PF01429	106 - 166	1.1e-10	Methyl-CpG binding domain

Hydrophobicity Profile (Kyte-Doolittle)

AI Structure Prediction Report

Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter

Style Settings

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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)
AanI	TTATAA	1 cut(s)	609
AasI	GACNNNNNNGTC	1 cut(s)	803
AccB1I	GGYRCC	1 cut(s)	874
AccB7I	CCANNNNNTGG	1 cut(s)	422
AccI	GTMKAC	1 cut(s)	703
AccII	CGCG	2 cut(s)	115, 370
AciI	CCGC	3 cut(s)	235, 368, 430
AcsI	RAATTY	1 cut(s)	212
AcuI	CTGAAG	1 cut(s)	476
AfaI	GTAC	1 cut(s)	271
AfiI	CCNNNNNNNGG	2 cut(s)	422, 765
AflIII	ACRYGT	1 cut(s)	266
AgsI	TTSAA	4 cut(s)	316, 479, 528, 844
AjnI	CCWGG	4 cut(s)	272, 415, 564, 763
AluBI	AGCT	4 cut(s)	84, 196, 230, 715
AluI	AGCT	4 cut(s)	84, 196, 230, 715
Alw21I	GWGCWC	1 cut(s)	717
Alw26I	GTCTC	1 cut(s)	689
AlwNI	CAGNNNCTG	1 cut(s)	422
AoxI	GGCC	2 cut(s)	152, 365
ApeKI	GCWGC	3 cut(s)	227, 230, 726
ApoI	RAATTY	1 cut(s)	212
ArsI	GACNNNNNNTTYG	2 cut(s)	198, 230
AseI	ATTAAT	1 cut(s)	572
Asp700I	GAANNNNTTC	2 cut(s)	325, 785
AspLEI	GCGC	1 cut(s)	117
AspS9I	GGNCC	3 cut(s)	153, 561, 761
AsuHPI	GGTGA	2 cut(s)	61, 579
AsuII	TTCGAA	1 cut(s)	596
AvaII	GGWCC	2 cut(s)	561, 761
BanI	GGYRCC	1 cut(s)	874
BanII	GRGCYC	1 cut(s)	717
BbsI	GAAGAC	1 cut(s)	75
Bbv12I	GWGCWC	1 cut(s)	717
BbvI	GCAGC	3 cut(s)	217, 239, 738
BccI	CCATC	3 cut(s)	125, 245, 338
BciT130I	CCWGG	4 cut(s)	274, 417, 566, 765
BcoDI	GTCTC	1 cut(s)	689
BfaI	CTAG	4 cut(s)	87, 387, 666, 801
BisI	GCNGC	4 cut(s)	228, 231, 368, 727
BlsI	GCNGC	4 cut(s)	229, 232, 369, 728
Bme1390I	CCNGG	4 cut(s)	274, 417, 566, 765
Bme18I	GGWCC	2 cut(s)	561, 761
BmgT120I	GGNCC	3 cut(s)	153, 561, 761
BmiI	GGNNCC	5 cut(s)	30, 155, 563, 782, 876
BmrFI	CCNGG	4 cut(s)	274, 417, 566, 765
BmsI	GCATC	2 cut(s)	492, 613
BpiI	GAAGAC	1 cut(s)	75
BpmI	CTGGAG	1 cut(s)	148
Bpu14I	TTCGAA	1 cut(s)	596
BsaAI	YACGTR	1 cut(s)	269
BsaJI	CCNNGG	4 cut(s)	416, 564, 764, 878
BsaXI	ACNNNNNCTCC	2 cut(s)	37, 67
Bsc4I	CCNNNNNNNGG	2 cut(s)	422, 765
Bse118I	RCCGGY	1 cut(s)	758
Bse1I	ACTGG	2 cut(s)	228, 427
Bse3DI	GCAATG	1 cut(s)	633
BseBI	CCWGG	4 cut(s)	274, 417, 566, 765
BseDI	CCNNGG	4 cut(s)	416, 564, 764, 878
BseLI	CCNNNNNNNGG	2 cut(s)	422, 765
BseMI	GCAATG	1 cut(s)	633
BseMII	CTCAG	2 cut(s)	723, 825
BseNI	ACTGG	2 cut(s)	228, 427
BseXI	GCAGC	3 cut(s)	217, 239, 738
Bsh1236I	CGCG	2 cut(s)	115, 370
BshFI	GGCC	2 cut(s)	154, 367
BshNI	GGYRCC	1 cut(s)	874
BsiHKAI	GWGCWC	1 cut(s)	717
BsiSI	CCGG	3 cut(s)	26, 56, 759
BslFI	GGGAC	3 cut(s)	219, 433, 547
BslI	CCNNNNNNNGG	2 cut(s)	422, 765
BsmAI	GTCTC	1 cut(s)	689
BsmBI	CGTCTC	1 cut(s)	689
BsmFI	GGGAC	3 cut(s)	219, 433, 547
BsmI	GAATGC	2 cut(s)	583, 661
BsnI	GGCC	2 cut(s)	154, 367
Bsp119I	TTCGAA	1 cut(s)	596
Bsp1286I	GDGCHC	1 cut(s)	717
BspACI	CCGC	3 cut(s)	235, 368, 430
BspANI	GGCC	2 cut(s)	154, 367
BspCNI	CTCAG	2 cut(s)	722, 826
BspFNI	CGCG	2 cut(s)	115, 370
BspLI	GGNNCC	5 cut(s)	30, 155, 563, 782, 876
BspT104I	TTCGAA	1 cut(s)	596
BspT107I	GGYRCC	1 cut(s)	874
BsrDI	GCAATG	1 cut(s)	633
BsrFI	RCCGGY	1 cut(s)	758
BsrI	ACTGG	2 cut(s)	228, 427
BssAI	RCCGGY	1 cut(s)	758
BssECI	CCNNGG	4 cut(s)	416, 564, 764, 878
BssT1I	CCWWGG	1 cut(s)	878
Bst2UI	CCWGG	4 cut(s)	274, 417, 566, 765
Bst4CI	ACNGT	2 cut(s)	49, 175
BstBAI	YACGTR	1 cut(s)	269
BstBI	TTCGAA	1 cut(s)	596
BstC8I	GCNNGC	2 cut(s)	235, 507
BstDEI	CTNAG	3 cut(s)	579, 709, 834
BstFNI	CGCG	2 cut(s)	115, 370
BstHHI	GCGC	1 cut(s)	117
BstMAI	GTCTC	1 cut(s)	689
BstMWI	GCNNNNNNNGC	1 cut(s)	297
BstNI	CCWGG	4 cut(s)	274, 417, 566, 765
BstSCI	CCNGG	4 cut(s)	272, 415, 564, 763
BstUI	CGCG	2 cut(s)	115, 370
BstV1I	GCAGC	3 cut(s)	217, 239, 738
BstV2I	GAAGAC	1 cut(s)	75
BstXI	CCANNNNNNTGG	2 cut(s)	135, 348
BsuRI	GGCC	2 cut(s)	154, 367
BtgZI	GCGATG	1 cut(s)	6
BtsI	GCAGTG	1 cut(s)	105
BtsIMutI	CAGTG	3 cut(s)	38, 105, 221
Cac8I	GCNNGC	2 cut(s)	235, 507
CaiI	CAGNNNCTG	1 cut(s)	422
CfoI	GCGC	1 cut(s)	117
Cfr10I	RCCGGY	1 cut(s)	758
Cfr13I	GGNCC	3 cut(s)	153, 561, 761
Csp6I	GTAC	1 cut(s)	270
CviAII	CATG	1 cut(s)	591
CviQI	GTAC	1 cut(s)	270
DdeI	CTNAG	3 cut(s)	579, 709, 834
DrdI	GACNNNNNNGTC	1 cut(s)	803
DseDI	GACNNNNNNGTC	1 cut(s)	803
Ecl136II	GAGCTC	1 cut(s)	715
Eco130I	CCWWGG	1 cut(s)	878
Eco24I	GRGCYC	1 cut(s)	717
Eco47I	GGWCC	2 cut(s)	561, 761
Eco53kI	GAGCTC	1 cut(s)	715
Eco57I	CTGAAG	1 cut(s)	476
EcoICRI	GAGCTC	1 cut(s)	715
EcoO109I	RGGNCCY	2 cut(s)	153, 561
EcoRII	CCWGG	4 cut(s)	272, 415, 564, 763
EcoT14I	CCWWGG	1 cut(s)	878
EcoT38I	GRGCYC	1 cut(s)	717
ErhI	CCWWGG	1 cut(s)	878
Esp3I	CGTCTC	1 cut(s)	689
FaeI	CATG	1 cut(s)	594
FaiI	YATR	7 cut(s)	393, 408, 592, 609, 776, 791, 858
FaqI	GGGAC	3 cut(s)	219, 433, 547
FatI	CATG	1 cut(s)	590
FauI	CCCGC	1 cut(s)	242
FblI	GTMKAC	1 cut(s)	703
Fnu4HI	GCNGC	4 cut(s)	228, 231, 368, 727
FriOI	GRGCYC	1 cut(s)	717
Fsp4HI	GCNGC	4 cut(s)	228, 231, 368, 727
FspBI	CTAG	4 cut(s)	87, 387, 666, 801
GlaI	GCGC	1 cut(s)	116
GluI	GCNGC	4 cut(s)	228, 231, 368, 727
GsuI	CTGGAG	1 cut(s)	148
HaeIII	GGCC	2 cut(s)	154, 367
HapII	CCGG	3 cut(s)	26, 56, 759
HhaI	GCGC	1 cut(s)	117
Hin1II	CATG	1 cut(s)	594
Hin6I	GCGC	1 cut(s)	115
HinP1I	GCGC	1 cut(s)	115
HincII	GTYRAC	1 cut(s)	178
HindII	GTYRAC	1 cut(s)	178
HinfI	GANTC	4 cut(s)	52, 123, 797, 812
HpaII	CCGG	3 cut(s)	26, 56, 759
HphI	GGTGA	2 cut(s)	61, 579
Hpy166II	GTNNAC	3 cut(s)	178, 221, 704
Hpy188I	TCNGA	4 cut(s)	546, 675, 712, 835
Hpy188III	TCNNGA	1 cut(s)	316
Hpy8I	GTNNAC	3 cut(s)	178, 221, 704
Hpy99I	CGWCG	1 cut(s)	162
HpyAV	CCTTC	3 cut(s)	322, 340, 796
HpyCH4III	ACNGT	2 cut(s)	49, 175
HpyCH4IV	ACGT	1 cut(s)	268
HpyCH4V	TGCA	3 cut(s)	97, 307, 626
HpyF10VI	GCNNNNNNNGC	1 cut(s)	297
HpyF3I	CTNAG	3 cut(s)	579, 709, 834
HpySE526I	ACGT	1 cut(s)	268
Hsp92II	CATG	1 cut(s)	594
HspAI	GCGC	1 cut(s)	115
LmnI	GCTCC	2 cut(s)	28, 167
Lsp1109I	GCAGC	3 cut(s)	217, 239, 738
LweI	GCATC	2 cut(s)	492, 613
MaeI	CTAG	4 cut(s)	87, 387, 666, 801
MaeII	ACGT	1 cut(s)	268
MaeIII	GTNAC	3 cut(s)	49, 103, 395
MboII	GAAGA	7 cut(s)	77, 80, 318, 482, 559, 562, 688
MfeI	CAATTG	1 cut(s)	98
MhlI	GDGCHC	1 cut(s)	717
MluCI	AATT	9 cut(s)	33, 98, 212, 258, 354, 382, 474, 569, 573
MlyI	GAGTC	3 cut(s)	46, 117, 791
MnlI	CCTC	4 cut(s)	139, 352, 624, 718
MroXI	GAANNNNTTC	2 cut(s)	325, 785
MseI	TTAA	4 cut(s)	443, 572, 744, 886
MspA1I	CMGCKG	1 cut(s)	230
MspI	CCGG	3 cut(s)	26, 56, 759
MspR9I	CCNGG	4 cut(s)	274, 417, 566, 765
MunI	CAATTG	1 cut(s)	98
Mva1269I	GAATGC	2 cut(s)	583, 661
MvaI	CCWGG	4 cut(s)	274, 417, 566, 765
MvnI	CGCG	2 cut(s)	115, 370
MwoI	GCNNNNNNNGC	1 cut(s)	297
NlaIII	CATG	1 cut(s)	594
NlaIV	GGNNCC	5 cut(s)	30, 155, 563, 782, 876
NmuCI	GTSAC	3 cut(s)	49, 103, 395
NspV	TTCGAA	1 cut(s)	596
PctI	GAATGC	2 cut(s)	583, 661
PdmI	GAANNNNTTC	2 cut(s)	325, 785
PfeI	GAWTC	1 cut(s)	812
PflMI	CCANNNNNTGG	1 cut(s)	422
PkrI	GCNGC	4 cut(s)	229, 232, 369, 728
PleI	GAGTC	3 cut(s)	46, 117, 791
PpsI	GAGTC	3 cut(s)	46, 117, 791
Ppu21I	YACGTR	1 cut(s)	269
PpuMI	RGGWCCY	1 cut(s)	561
PshBI	ATTAAT	1 cut(s)	572
PsiI	TTATAA	1 cut(s)	609
Psp124BI	GAGCTC	1 cut(s)	717
Psp5II	RGGWCCY	1 cut(s)	561
Psp6I	CCWGG	4 cut(s)	272, 415, 564, 763
PspGI	CCWGG	4 cut(s)	272, 415, 564, 763
PspN4I	GGNNCC	5 cut(s)	30, 155, 563, 782, 876
PspPI	GGNCC	3 cut(s)	153, 561, 761
PspPPI	RGGWCCY	1 cut(s)	561
PstNI	CAGNNNCTG	1 cut(s)	422
PvuII	CAGCTG	1 cut(s)	230
RsaI	GTAC	1 cut(s)	271
RsaNI	GTAC	1 cut(s)	270
SacI	GAGCTC	1 cut(s)	717
SaqAI	TTAA	4 cut(s)	443, 572, 744, 886
SatI	GCNGC	4 cut(s)	228, 231, 368, 727
Sau96I	GGNCC	3 cut(s)	153, 561, 761
SchI	GAGTC	3 cut(s)	46, 117, 791
ScrFI	CCNGG	4 cut(s)	274, 417, 566, 765
SduI	GDGCHC	1 cut(s)	717
SfaNI	GCATC	2 cut(s)	492, 613
SfuI	TTCGAA	1 cut(s)	596
SinI	GGWCC	2 cut(s)	561, 761
Sse9I	AATT	9 cut(s)	33, 98, 212, 258, 354, 382, 474, 569, 573
SsiI	CCGC	3 cut(s)	235, 368, 430
SspMI	CTAG	4 cut(s)	87, 387, 666, 801
SstI	GAGCTC	1 cut(s)	717
StyD4I	CCNGG	4 cut(s)	272, 415, 564, 763
StyI	CCWWGG	1 cut(s)	878
TaaI	ACNGT	2 cut(s)	49, 175
TaiI	ACGT	1 cut(s)	271
TaqI	TCGA	1 cut(s)	596
TasI	AATT	9 cut(s)	33, 98, 212, 258, 354, 382, 474, 569, 573
TauI	GCSGC	1 cut(s)	370
TfiI	GAWTC	1 cut(s)	812
Tru1I	TTAA	4 cut(s)	443, 572, 744, 886
Tru9I	TTAA	4 cut(s)	443, 572, 744, 886
TscAI	CASTG	3 cut(s)	45, 112, 228
TseFI	GTSAC	3 cut(s)	49, 103, 395
TseI	GCWGC	3 cut(s)	227, 230, 726
Tsp45I	GTSAC	3 cut(s)	49, 103, 395
TspDTI	ATGAA	3 cut(s)	17, 615, 778
TspRI	CASTG	3 cut(s)	45, 112, 228
Van91I	CCANNNNNTGG	1 cut(s)	422
VpaK11BI	GGWCC	2 cut(s)	561, 761
VspI	ATTAAT	1 cut(s)	572
XapI	RAATTY	1 cut(s)	212
XmiI	GTMKAC	1 cut(s)	703
XmnI	GAANNNNTTC	2 cut(s)	325, 785
XspI	CTAG	4 cut(s)	87, 387, 666, 801

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