Basic Information

Type: gene

Biological Identity

Species

rosa_samantha

Chromosome

Chr5A

Orthogroup ID

OG0002318

Physical Location & Seq

Genomic Coordinates Reverse (-)

71449964 .. 71452780

Gene Structure 2817 bp

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UTR

Exon/CDS

Intron

Transcript / Protein ID

Rh5AG413800.1

Sequence Viewer

CDS Protein Promoter (2k)

Length: 846 bp

ATGACGGTGACTCCGGCAAAGGAAGAAGACCAACCCAGAAGCTCTAGGCAACTGCAATTGGTCACTGCTTCGCGCTTTGGACTCCCAGATGGTTGGTCTGTTGAGGAAAGGCCCCGTCGCTCCAGCCAAACAGTTGACAAGTATTACATTGAGCTTGACACGGGACTGAAATTTCGTTCACTGGCAGCTGCCCGCAGATACCTAACAGATGGGCAAATTGATACACGTACCAGGAGAGAAAAATCAGGCAGTCAAAGCACAATGCAATCCTTCAAGAGAAGTTCTTCCTTCACACTACCAGATGGTTGGGAAATTGAGGAAAGGCCGCGAAAGAATACTAATTCTAGTCATAGTGACAAGTATTATATTGAGCCAGGGACTGGAAAGCGGTTTCGTTCTTTAATATCTGTTGAGAGATACCTAACAGAAGAAATTGAACGCACTCCACTTCAGGCATTGATGCCTGCCAATAAGTCCAATCTTTCAAGTAGTTCTGGCAGTCAGAAGAAGAAAATTCGGTCCCTGGAATTAATTTCTAAGCATTCATCATGTTCGAATGAATGTTATAATAGCACACTTGATGCAATGAGGCTCAACACTTATTCTACACCTGAAAAGCATTCTAGTTCTCCGAAGAAAAGTATTTCTGGGGAGACGAGTAGACCCTCAGAGCTCACTAATGGCAGCCCACCAACAAAAGTTAAATGGGTTCTCGCCGGTCCTGGGGGGAATATGTGGAACCCCTTCATAGATGACTCTAGGGTCGCTGATTCTGTAAAGCAAATGTGGTCTGAGATTTTCAAGTCATCAATCTATAACGAAAACGCAAAGGCACCAAGGTCTTAA

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

281

Amino Acids

31.77

Weight (kDa)

9.65

Isoelectric Point (pI)

74.35

Instability Index

Protein Domains (Pfam)

Domain Name	Pfam ID	Position	E-value	Description
MBD	PF01429	92 - 162	1.2e-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)	567
AasI	GACNNNNNNGTC	1 cut(s)	761
AccB1I	GGYRCC	1 cut(s)	832
AccB7I	CCANNNNNTGG	1 cut(s)	380
AccI	GTMKAC	1 cut(s)	661
AccII	CGCG	2 cut(s)	73, 328
AciI	CCGC	3 cut(s)	193, 326, 388
AcsI	RAATTY	2 cut(s)	170, 513
AcuI	CTGAAG	1 cut(s)	434
AfaI	GTAC	1 cut(s)	229
AfiI	CCNNNNNNNGG	2 cut(s)	380, 723
AflIII	ACRYGT	1 cut(s)	224
AgsI	TTSAA	4 cut(s)	274, 437, 486, 802
AjnI	CCWGG	4 cut(s)	230, 373, 522, 721
AluBI	AGCT	4 cut(s)	42, 154, 188, 673
AluI	AGCT	4 cut(s)	42, 154, 188, 673
Alw21I	GWGCWC	1 cut(s)	675
Alw26I	GTCTC	1 cut(s)	647
AlwNI	CAGNNNCTG	1 cut(s)	380
AoxI	GGCC	2 cut(s)	110, 323
ApeKI	GCWGC	3 cut(s)	185, 188, 684
ApoI	RAATTY	2 cut(s)	170, 513
ArsI	GACNNNNNNTTYG	2 cut(s)	156, 188
AseI	ATTAAT	1 cut(s)	530
Asp700I	GAANNNNTTC	2 cut(s)	283, 743
AspLEI	GCGC	1 cut(s)	75
AspS9I	GGNCC	3 cut(s)	111, 519, 719
AsuHPI	GGTGA	1 cut(s)	19
AsuII	TTCGAA	1 cut(s)	554
AvaII	GGWCC	2 cut(s)	519, 719
BanI	GGYRCC	1 cut(s)	832
BanII	GRGCYC	1 cut(s)	675
BbsI	GAAGAC	1 cut(s)	33
Bbv12I	GWGCWC	1 cut(s)	675
BbvI	GCAGC	3 cut(s)	175, 197, 696
BccI	CCATC	3 cut(s)	83, 203, 296
BciT130I	CCWGG	4 cut(s)	232, 375, 524, 723
BcoDI	GTCTC	1 cut(s)	647
BfaI	CTAG	4 cut(s)	45, 345, 624, 759
BisI	GCNGC	4 cut(s)	186, 189, 326, 685
BlsI	GCNGC	4 cut(s)	187, 190, 327, 686
Bme1390I	CCNGG	4 cut(s)	232, 375, 524, 723
Bme18I	GGWCC	2 cut(s)	519, 719
BmgT120I	GGNCC	3 cut(s)	111, 519, 719
BmiI	GGNNCC	4 cut(s)	113, 521, 740, 834
BmrFI	CCNGG	4 cut(s)	232, 375, 524, 723
BmsI	GCATC	2 cut(s)	450, 571
BpiI	GAAGAC	1 cut(s)	33
BpmI	CTGGAG	1 cut(s)	106
Bpu14I	TTCGAA	1 cut(s)	554
BsaAI	YACGTR	1 cut(s)	227
BsaJI	CCNNGG	4 cut(s)	374, 522, 722, 836
BsaXI	ACNNNNNCTCC	1 cut(s)	25
Bsc4I	CCNNNNNNNGG	2 cut(s)	380, 723
Bse118I	RCCGGY	1 cut(s)	716
Bse1I	ACTGG	2 cut(s)	186, 385
Bse3DI	GCAATG	1 cut(s)	591
BseBI	CCWGG	4 cut(s)	232, 375, 524, 723
BseDI	CCNNGG	4 cut(s)	374, 522, 722, 836
BseLI	CCNNNNNNNGG	2 cut(s)	380, 723
BseMI	GCAATG	1 cut(s)	591
BseMII	CTCAG	2 cut(s)	681, 783
BseNI	ACTGG	2 cut(s)	186, 385
BseXI	GCAGC	3 cut(s)	175, 197, 696
Bsh1236I	CGCG	2 cut(s)	73, 328
BshFI	GGCC	2 cut(s)	112, 325
BshNI	GGYRCC	1 cut(s)	832
BsiHKAI	GWGCWC	1 cut(s)	675
BsiSI	CCGG	2 cut(s)	14, 717
BslFI	GGGAC	3 cut(s)	177, 391, 505
BslI	CCNNNNNNNGG	2 cut(s)	380, 723
BsmAI	GTCTC	1 cut(s)	647
BsmBI	CGTCTC	1 cut(s)	647
BsmFI	GGGAC	3 cut(s)	177, 391, 505
BsmI	GAATGC	2 cut(s)	541, 619
BsnI	GGCC	2 cut(s)	112, 325
Bsp119I	TTCGAA	1 cut(s)	554
Bsp1286I	GDGCHC	1 cut(s)	675
BspACI	CCGC	3 cut(s)	193, 326, 388
BspANI	GGCC	2 cut(s)	112, 325
BspCNI	CTCAG	2 cut(s)	680, 784
BspFNI	CGCG	2 cut(s)	73, 328
BspLI	GGNNCC	4 cut(s)	113, 521, 740, 834
BspT104I	TTCGAA	1 cut(s)	554
BspT107I	GGYRCC	1 cut(s)	832
BsrDI	GCAATG	1 cut(s)	591
BsrFI	RCCGGY	1 cut(s)	716
BsrI	ACTGG	2 cut(s)	186, 385
BssAI	RCCGGY	1 cut(s)	716
BssECI	CCNNGG	4 cut(s)	374, 522, 722, 836
BssT1I	CCWWGG	1 cut(s)	836
Bst2UI	CCWGG	4 cut(s)	232, 375, 524, 723
Bst4CI	ACNGT	2 cut(s)	7, 133
BstBAI	YACGTR	1 cut(s)	227
BstBI	TTCGAA	1 cut(s)	554
BstC8I	GCNNGC	2 cut(s)	193, 465
BstDEI	CTNAG	3 cut(s)	537, 667, 792
BstFNI	CGCG	2 cut(s)	73, 328
BstHHI	GCGC	1 cut(s)	75
BstMAI	GTCTC	1 cut(s)	647
BstMWI	GCNNNNNNNGC	1 cut(s)	255
BstNI	CCWGG	4 cut(s)	232, 375, 524, 723
BstSCI	CCNGG	4 cut(s)	230, 373, 522, 721
BstUI	CGCG	2 cut(s)	73, 328
BstV1I	GCAGC	3 cut(s)	175, 197, 696
BstV2I	GAAGAC	1 cut(s)	33
BstXI	CCANNNNNNTGG	2 cut(s)	93, 306
BsuRI	GGCC	2 cut(s)	112, 325
BtsI	GCAGTG	1 cut(s)	63
BtsIMutI	CAGTG	2 cut(s)	63, 179
Cac8I	GCNNGC	2 cut(s)	193, 465
CaiI	CAGNNNCTG	1 cut(s)	380
CfoI	GCGC	1 cut(s)	75
Cfr10I	RCCGGY	1 cut(s)	716
Cfr13I	GGNCC	3 cut(s)	111, 519, 719
Csp6I	GTAC	1 cut(s)	228
CviAII	CATG	1 cut(s)	549
CviQI	GTAC	1 cut(s)	228
DdeI	CTNAG	3 cut(s)	537, 667, 792
DrdI	GACNNNNNNGTC	1 cut(s)	761
DseDI	GACNNNNNNGTC	1 cut(s)	761
Ecl136II	GAGCTC	1 cut(s)	673
Eco130I	CCWWGG	1 cut(s)	836
Eco24I	GRGCYC	1 cut(s)	675
Eco47I	GGWCC	2 cut(s)	519, 719
Eco53kI	GAGCTC	1 cut(s)	673
Eco57I	CTGAAG	1 cut(s)	434
EcoICRI	GAGCTC	1 cut(s)	673
EcoO109I	RGGNCCY	1 cut(s)	111
EcoRII	CCWGG	4 cut(s)	230, 373, 522, 721
EcoT14I	CCWWGG	1 cut(s)	836
EcoT38I	GRGCYC	1 cut(s)	675
ErhI	CCWWGG	1 cut(s)	836
Esp3I	CGTCTC	1 cut(s)	647
FaeI	CATG	1 cut(s)	552
FaiI	YATR	7 cut(s)	351, 366, 550, 567, 734, 749, 816
FaqI	GGGAC	3 cut(s)	177, 391, 505
FatI	CATG	1 cut(s)	548
FauI	CCCGC	1 cut(s)	200
FblI	GTMKAC	1 cut(s)	661
Fnu4HI	GCNGC	4 cut(s)	186, 189, 326, 685
FriOI	GRGCYC	1 cut(s)	675
Fsp4HI	GCNGC	4 cut(s)	186, 189, 326, 685
FspBI	CTAG	4 cut(s)	45, 345, 624, 759
GlaI	GCGC	1 cut(s)	74
GluI	GCNGC	4 cut(s)	186, 189, 326, 685
GsuI	CTGGAG	1 cut(s)	106
HaeIII	GGCC	2 cut(s)	112, 325
HapII	CCGG	2 cut(s)	14, 717
HhaI	GCGC	1 cut(s)	75
Hin1II	CATG	1 cut(s)	552
Hin6I	GCGC	1 cut(s)	73
HinP1I	GCGC	1 cut(s)	73
HincII	GTYRAC	1 cut(s)	136
HindII	GTYRAC	1 cut(s)	136
HinfI	GANTC	4 cut(s)	10, 81, 755, 770
HpaII	CCGG	2 cut(s)	14, 717
HphI	GGTGA	1 cut(s)	19
Hpy166II	GTNNAC	3 cut(s)	136, 179, 662
Hpy188I	TCNGA	4 cut(s)	504, 633, 670, 793
Hpy188III	TCNNGA	1 cut(s)	274
Hpy8I	GTNNAC	3 cut(s)	136, 179, 662
Hpy99I	CGWCG	1 cut(s)	120
HpyAV	CCTTC	3 cut(s)	280, 298, 754
HpyCH4III	ACNGT	2 cut(s)	7, 133
HpyCH4IV	ACGT	1 cut(s)	226
HpyCH4V	TGCA	3 cut(s)	55, 265, 584
HpyF10VI	GCNNNNNNNGC	1 cut(s)	255
HpyF3I	CTNAG	3 cut(s)	537, 667, 792
HpySE526I	ACGT	1 cut(s)	226
Hsp92II	CATG	1 cut(s)	552
HspAI	GCGC	1 cut(s)	73
LmnI	GCTCC	1 cut(s)	125
Lsp1109I	GCAGC	3 cut(s)	175, 197, 696
LweI	GCATC	2 cut(s)	450, 571
MaeI	CTAG	4 cut(s)	45, 345, 624, 759
MaeII	ACGT	1 cut(s)	226
MaeIII	GTNAC	3 cut(s)	7, 61, 353
MboII	GAAGA	7 cut(s)	35, 38, 276, 440, 517, 520, 646
MfeI	CAATTG	1 cut(s)	56
MhlI	GDGCHC	1 cut(s)	675
MluCI	AATT	9 cut(s)	56, 170, 216, 312, 340, 432, 513, 527, 531
MlyI	GAGTC	3 cut(s)	4, 75, 749
MnlI	CCTC	4 cut(s)	97, 310, 582, 676
MroXI	GAANNNNTTC	2 cut(s)	283, 743
MseI	TTAA	4 cut(s)	401, 530, 702, 844
MspA1I	CMGCKG	1 cut(s)	188
MspI	CCGG	2 cut(s)	14, 717
MspR9I	CCNGG	4 cut(s)	232, 375, 524, 723
MunI	CAATTG	1 cut(s)	56
Mva1269I	GAATGC	2 cut(s)	541, 619
MvaI	CCWGG	4 cut(s)	232, 375, 524, 723
MvnI	CGCG	2 cut(s)	73, 328
MwoI	GCNNNNNNNGC	1 cut(s)	255
NlaIII	CATG	1 cut(s)	552
NlaIV	GGNNCC	4 cut(s)	113, 521, 740, 834
NmuCI	GTSAC	3 cut(s)	7, 61, 353
NspV	TTCGAA	1 cut(s)	554
PctI	GAATGC	2 cut(s)	541, 619
PdmI	GAANNNNTTC	2 cut(s)	283, 743
PfeI	GAWTC	1 cut(s)	770
PflMI	CCANNNNNTGG	1 cut(s)	380
PkrI	GCNGC	4 cut(s)	187, 190, 327, 686
PleI	GAGTC	3 cut(s)	4, 75, 749
PpsI	GAGTC	3 cut(s)	4, 75, 749
Ppu21I	YACGTR	1 cut(s)	227
PshBI	ATTAAT	1 cut(s)	530
PsiI	TTATAA	1 cut(s)	567
Psp124BI	GAGCTC	1 cut(s)	675
Psp6I	CCWGG	4 cut(s)	230, 373, 522, 721
PspGI	CCWGG	4 cut(s)	230, 373, 522, 721
PspN4I	GGNNCC	4 cut(s)	113, 521, 740, 834
PspPI	GGNCC	3 cut(s)	111, 519, 719
PstNI	CAGNNNCTG	1 cut(s)	380
PvuII	CAGCTG	1 cut(s)	188
RsaI	GTAC	1 cut(s)	229
RsaNI	GTAC	1 cut(s)	228
SacI	GAGCTC	1 cut(s)	675
SaqAI	TTAA	4 cut(s)	401, 530, 702, 844
SatI	GCNGC	4 cut(s)	186, 189, 326, 685
Sau96I	GGNCC	3 cut(s)	111, 519, 719
SchI	GAGTC	3 cut(s)	4, 75, 749
ScrFI	CCNGG	4 cut(s)	232, 375, 524, 723
SduI	GDGCHC	1 cut(s)	675
SetI	ASST	9 cut(s)	44, 156, 190, 204, 229, 423, 613, 675, 842
SfaNI	GCATC	2 cut(s)	450, 571
SfuI	TTCGAA	1 cut(s)	554
SinI	GGWCC	2 cut(s)	519, 719
Sse9I	AATT	9 cut(s)	56, 170, 216, 312, 340, 432, 513, 527, 531
SsiI	CCGC	3 cut(s)	193, 326, 388
SspMI	CTAG	4 cut(s)	45, 345, 624, 759
SstI	GAGCTC	1 cut(s)	675
StyD4I	CCNGG	4 cut(s)	230, 373, 522, 721
StyI	CCWWGG	1 cut(s)	836
TaaI	ACNGT	2 cut(s)	7, 133
TaiI	ACGT	1 cut(s)	229
TaqI	TCGA	1 cut(s)	554
TaqII	GACCGA	1 cut(s)	507
TasI	AATT	9 cut(s)	56, 170, 216, 312, 340, 432, 513, 527, 531
TauI	GCSGC	1 cut(s)	328
TfiI	GAWTC	1 cut(s)	770
Tru1I	TTAA	4 cut(s)	401, 530, 702, 844
Tru9I	TTAA	4 cut(s)	401, 530, 702, 844
TscAI	CASTG	2 cut(s)	70, 186
TseFI	GTSAC	3 cut(s)	7, 61, 353
TseI	GCWGC	3 cut(s)	185, 188, 684
Tsp45I	GTSAC	3 cut(s)	7, 61, 353
TspDTI	ATGAA	3 cut(s)	534, 573, 736
TspRI	CASTG	2 cut(s)	70, 186
Van91I	CCANNNNNTGG	1 cut(s)	380
VpaK11BI	GGWCC	2 cut(s)	519, 719
VspI	ATTAAT	1 cut(s)	530
XapI	RAATTY	2 cut(s)	170, 513
XmiI	GTMKAC	1 cut(s)	661
XmnI	GAANNNNTTC	2 cut(s)	283, 743
XspI	CTAG	4 cut(s)	45, 345, 624, 759

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