RchiOBHm_Chr6g0283131

Embryonic stem cell-specific 5-hydroxymethylcytosine-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
6
OG0013250
Physical Location & Seq
Forward (+)
46320605 .. 46323904
3300 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ25384

Sequence Viewer

Length: 930 bp
ATGGTGTGGCGTTTCGGTTCCCGCCTTGTTGAGTGTTCTTCTTCCTTGGAGATGTGTGGGAGGGCGCGCTGTACTCTCAGAGCCGACGACGTTTCGAGGGCTTGCTACCGCAACCATGGCGCCATTCGTACGATTAACTTGGACCGGTATCGGCCGTCGTATAATGTGTCGCCGGGAGCGGATTTGCCGGTCGTGCGTAGAGGAGATAGTGGGTCAGATGGTGAAGACGGCGCTGTTCTTCATTGCATGAAATGGGGACTGATTCCGAGTTTCACCAAGAAAACGGAGAAGCCCGATCATTACAGGATGTTCAATGCTCGCTCTGAGTCCATTTGTGAAAAGGCTTCTTTTCGTCGTCTAGTTCCTAAAAACCGCTGCCTAGTTGCTGTAGAAGGATTTTATGAATGGAAAAAAGATGGTTCTAAGAAACAGCCTTACTATGTCCATTTTAAGGATGGTCGGCCTCTTCTGTTTGCTGCTCTTTATGATTCGTGGGAGAACTCTGAAGGTGAGAAACTTTATACCTTCACTATCATTACAACTTCTTCATCTTCAGCTTTGGCGTGGCTCCATGACAGGATGCCAGTTATTTTGGGTGACAAGGAATCTATTGATACATGGCTTAATGATTCTTCATCTTCCAATTTTGACAAGTTACTTAAACCATATGAAGGGTCTGATTTGGTATGGTACCCAGTAACACCAGCAATGGGTAAGGTGTCTTTTAATGGGCCAGAGTGCAGCAATGAGATACAGTTGAAGACAGAGGGCACTAACTCGATCACAAAATTTTTCTCAACAAAGGGAACCAAAAAAGAAGAGCTAAAGCCAAATGATACAAGTTCTCATGACTCATCTGTGAAGACTGATTTTCCAGAAAGCATAAAAAAGATCCTGAATACACAGAGGACAGGGTGCAACCATCCTTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
SRAP

Protein Analysis

309

Amino Acids

34.98

Weight (kDa)

8.73

Isoelectric Point (pI)

42.27

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRAP PF02586 18 - 240 4.6e-72 SOS response associated peptidase (SRAP)
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Orthologous Genes (Group: OG0013250)

Species Orthologous Gene IDs
arabidopsis_thaliana AT2G26470 AT2G26470
fragaria_vesca FvH4_2g17880 FvH4_2g17880 FvH4_2g17880
malus_domestica MD05G1163100.v1.1
prunus_persica Prupe.8G191400_v2.0.a1
pyrus_communis pycom05g15260
rosa_chinensis RchiOBHm_Chr6g0283131
rosa_laevigata RLG00000012842
rosa_roxburghii Rroxscaffold_7G00185750
rosa_rugosa Rorug06G0151500.1 Rorug06G0151600
rosa_samantha Rh6AG264400 Rh6BG267300 Rh6CG266300 Rh6DG259600
rosa_wichuraiana Rw6G022880

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc65I GGTACC 1 cut(s) 690
AccB1I GGYRCC 2 cut(s) 119, 690
AccBSI CCGCTC 1 cut(s) 179
AccII CGCG 1 cut(s) 67
AciI CCGC 4 cut(s) 22, 109, 179, 373
AclWI GGATC 1 cut(s) 886
AcoI YGGCCR 1 cut(s) 152
AcsI RAATTY 1 cut(s) 788
AcuI CTGAAG 2 cut(s) 525, 537
AcyI GRCGYC 1 cut(s) 120
AfaI GTAC 3 cut(s) 73, 130, 692
AfiI CCNNNNNNNGG 3 cut(s) 451, 671, 710
AgeI ACCGGT 1 cut(s) 144
AgsI TTSAA 2 cut(s) 313, 760
AluBI AGCT 2 cut(s) 557, 823
AluI AGCT 2 cut(s) 557, 823
AlwI GGATC 1 cut(s) 886
AoxI GGCC 3 cut(s) 152, 461, 731
ApeKI GCWGC 3 cut(s) 375, 476, 741
ApoI RAATTY 1 cut(s) 788
AsiGI ACCGGT 1 cut(s) 144
Asp718I GGTACC 1 cut(s) 690
AspLEI GCGC 4 cut(s) 67, 69, 122, 233
AspS9I GGNCC 2 cut(s) 142, 731
AsuC2I CCSGG 1 cut(s) 174
AsuHPI GGTGA 4 cut(s) 233, 265, 521, 608
AvaII GGWCC 1 cut(s) 142
BaeGI GKGCMC 1 cut(s) 773
BanI GGYRCC 2 cut(s) 119, 690
BbsI GAAGAC 3 cut(s) 231, 767, 869
BbvI GCAGC 3 cut(s) 362, 463, 753
BccI CCATC 3 cut(s) 212, 410, 449
BceAI ACGGC 2 cut(s) 139, 244
BcnI CCSGG 1 cut(s) 174
BfaI CTAG 2 cut(s) 359, 380
BfmI CTRYAG 1 cut(s) 387
BfoI RGCGCY 2 cut(s) 123, 234
BisI GCNGC 3 cut(s) 376, 477, 742
BlsI GCNGC 3 cut(s) 377, 478, 743
Bme1390I CCNGG 1 cut(s) 174
Bme18I GGWCC 1 cut(s) 142
BmgT120I GGNCC 2 cut(s) 142, 731
BmiI GGNNCC 5 cut(s) 19, 121, 569, 692, 808
BmrFI CCNGG 1 cut(s) 174
BmrI ACTGGG 1 cut(s) 689
BmsI GCATC 1 cut(s) 570
BmuI ACTGGG 1 cut(s) 689
BpiI GAAGAC 3 cut(s) 231, 767, 869
BpuMI CCSGG 1 cut(s) 174
BsaHI GRCGYC 1 cut(s) 120
BsaJI CCNNGG 2 cut(s) 45, 115
BsaWI WCCGGW 1 cut(s) 144
Bsc4I CCNNNNNNNGG 3 cut(s) 451, 671, 710
Bse118I RCCGGY 2 cut(s) 144, 187
Bse1I ACTGG 2 cut(s) 584, 695
Bse3DI GCAATG 3 cut(s) 241, 714, 751
BseDI CCNNGG 2 cut(s) 45, 115
BseGI GGATG 4 cut(s) 312, 460, 585, 922
BseLI CCNNNNNNNGG 3 cut(s) 451, 671, 710
BseMI GCAATG 3 cut(s) 241, 714, 751
BseMII CTCAG 2 cut(s) 91, 315
BseNI ACTGG 2 cut(s) 584, 695
BsePI GCGCGC 1 cut(s) 65
BseRI GAGGAG 1 cut(s) 216
BseSI GKGCMC 1 cut(s) 773
BseX3I CGGCCG 1 cut(s) 152
BseXI GCAGC 3 cut(s) 362, 463, 753
BsgI GTGCAG 1 cut(s) 760
Bsh1236I CGCG 1 cut(s) 67
Bsh1285I CGRYCG 2 cut(s) 155, 192
BshFI GGCC 3 cut(s) 154, 463, 733
BshNI GGYRCC 2 cut(s) 119, 690
BshTI ACCGGT 1 cut(s) 144
BsiEI CGRYCG 2 cut(s) 155, 192
BsiSI CCGG 3 cut(s) 145, 173, 188
BsiWI CGTACG 1 cut(s) 128
BslFI GGGAC 1 cut(s) 270
BslI CCNNNNNNNGG 3 cut(s) 451, 671, 710
BsmFI GGGAC 1 cut(s) 270
BsnI GGCC 3 cut(s) 154, 463, 733
Bsp1286I GDGCHC 1 cut(s) 773
Bsp143I GATC 3 cut(s) 295, 780, 891
Bsp19I CCATGG 1 cut(s) 115
BspACI CCGC 4 cut(s) 22, 109, 179, 373
BspANI GGCC 3 cut(s) 154, 463, 733
BspCNI CTCAG 2 cut(s) 90, 316
BspFNI CGCG 1 cut(s) 67
BspHI TCATGA 1 cut(s) 847
BspLI GGNNCC 5 cut(s) 19, 121, 569, 692, 808
BspPI GGATC 1 cut(s) 886
BspQI GCTCTTC 1 cut(s) 813
BspT107I GGYRCC 2 cut(s) 119, 690
BsrBI CCGCTC 1 cut(s) 179
BsrDI GCAATG 3 cut(s) 241, 714, 751
BsrFI RCCGGY 2 cut(s) 144, 187
BsrI ACTGG 2 cut(s) 584, 695
BssAI RCCGGY 2 cut(s) 144, 187
BssECI CCNNGG 2 cut(s) 45, 115
BssHII GCGCGC 1 cut(s) 65
BssMI GATC 3 cut(s) 295, 780, 891
BssNI GRCGYC 1 cut(s) 120
BssT1I CCWWGG 2 cut(s) 45, 115
Bst4CI ACNGT 1 cut(s) 756
Bst6I CTCTTC 2 cut(s) 471, 813
BstACI GRCGYC 1 cut(s) 120
BstC8I GCNNGC 3 cut(s) 67, 103, 319
BstDEI CTNAG 3 cut(s) 77, 324, 423
BstDSI CCRYGG 1 cut(s) 115
BstF5I GGATG 4 cut(s) 312, 460, 585, 922
BstFNI CGCG 1 cut(s) 67
BstH2I RGCGCY 2 cut(s) 123, 234
BstHHI GCGC 4 cut(s) 67, 69, 122, 233
BstKTI GATC 3 cut(s) 298, 783, 894
BstMBI GATC 3 cut(s) 295, 780, 891
BstMCI CGRYCG 2 cut(s) 155, 192
BstMWI GCNNNNNNNGC 2 cut(s) 117, 193
BstSCI CCNGG 1 cut(s) 172
BstSFI CTRYAG 1 cut(s) 387
BstSLI GKGCMC 1 cut(s) 773
BstUI CGCG 1 cut(s) 67
BstV1I GCAGC 3 cut(s) 362, 463, 753
BstV2I GAAGAC 3 cut(s) 231, 767, 869
BstX2I RGATCY 1 cut(s) 891
BstYI RGATCY 1 cut(s) 891
BstZI CGGCCG 1 cut(s) 152
BsuRI GGCC 3 cut(s) 154, 463, 733
BtgI CCRYGG 1 cut(s) 115
BtsCI GGATG 4 cut(s) 312, 460, 585, 922
Cac8I GCNNGC 3 cut(s) 67, 103, 319
CciI TCATGA 1 cut(s) 847
CfoI GCGC 4 cut(s) 67, 69, 122, 233
Cfr10I RCCGGY 2 cut(s) 144, 187
Cfr13I GGNCC 2 cut(s) 142, 731
Csp6I GTAC 3 cut(s) 72, 129, 691
CspAI ACCGGT 1 cut(s) 144
CviAII CATG 5 cut(s) 116, 247, 572, 618, 848
CviQI GTAC 3 cut(s) 72, 129, 691
DdeI CTNAG 3 cut(s) 77, 324, 423
DinI GGCGCC 1 cut(s) 121
DpnI GATC 3 cut(s) 297, 782, 893
DpnII GATC 3 cut(s) 295, 780, 891
EaeI YGGCCR 1 cut(s) 152
EagI CGGCCG 1 cut(s) 152
Eam1104I CTCTTC 2 cut(s) 471, 813
EarI CTCTTC 2 cut(s) 471, 813
EclXI CGGCCG 1 cut(s) 152
Eco130I CCWWGG 2 cut(s) 45, 115
Eco47I GGWCC 1 cut(s) 142
Eco52I CGGCCG 1 cut(s) 152
Eco57I CTGAAG 2 cut(s) 525, 537
EcoT14I CCWWGG 2 cut(s) 45, 115
EgeI GGCGCC 1 cut(s) 121
EheI GGCGCC 1 cut(s) 121
ErhI CCWWGG 2 cut(s) 45, 115
FaeI CATG 5 cut(s) 119, 250, 575, 621, 851
FaqI GGGAC 1 cut(s) 270
FatI CATG 5 cut(s) 115, 246, 571, 617, 847
FauI CCCGC 1 cut(s) 29
FauNDI CATATG 1 cut(s) 667
Fnu4HI GCNGC 3 cut(s) 376, 477, 742
FokI GGATG 4 cut(s) 319, 467, 592, 909
Fsp4HI GCNGC 3 cut(s) 376, 477, 742
FspBI CTAG 2 cut(s) 359, 380
GlaI GCGC 4 cut(s) 66, 68, 121, 232
GluI GCNGC 3 cut(s) 376, 477, 742
HaeII RGCGCY 2 cut(s) 123, 234
HaeIII GGCC 3 cut(s) 154, 463, 733
HapII CCGG 3 cut(s) 145, 173, 188
HhaI GCGC 4 cut(s) 67, 69, 122, 233
Hin1I GRCGYC 1 cut(s) 120
Hin1II CATG 5 cut(s) 119, 250, 575, 621, 851
Hin6I GCGC 4 cut(s) 65, 67, 120, 231
HinP1I GCGC 4 cut(s) 65, 67, 120, 231
HinfI GANTC 6 cut(s) 262, 326, 488, 605, 629, 851
HpaII CCGG 3 cut(s) 145, 173, 188
HphI GGTGA 4 cut(s) 233, 265, 521, 608
Hpy188I TCNGA 6 cut(s) 80, 217, 267, 325, 505, 679
Hpy188III TCNNGA 3 cut(s) 848, 875, 895
Hpy99I CGWCG 4 cut(s) 89, 92, 160, 357
HpyAV CCTTC 4 cut(s) 386, 500, 535, 665
HpyCH4III ACNGT 1 cut(s) 756
HpyCH4IV ACGT 1 cut(s) 90
HpyCH4V TGCA 3 cut(s) 246, 741, 918
HpyF10VI GCNNNNNNNGC 2 cut(s) 117, 193
HpyF3I CTNAG 3 cut(s) 77, 324, 423
HpySE526I ACGT 1 cut(s) 90
Hsp92I GRCGYC 1 cut(s) 120
Hsp92II CATG 5 cut(s) 119, 250, 575, 621, 851
HspAI GCGC 4 cut(s) 65, 67, 120, 231
KasI GGCGCC 1 cut(s) 119
KpnI GGTACC 1 cut(s) 694
Kzo9I GATC 3 cut(s) 295, 780, 891
LguI GCTCTTC 1 cut(s) 813
LmnI GCTCC 2 cut(s) 176, 573
Lsp1109I GCAGC 3 cut(s) 362, 463, 753
LweI GCATC 1 cut(s) 570
MaeI CTAG 2 cut(s) 359, 380
MaeII ACGT 1 cut(s) 90
MaeIII GTNAC 3 cut(s) 596, 654, 697
MalI GATC 3 cut(s) 297, 782, 893
MbiI CCGCTC 1 cut(s) 179
MboI GATC 3 cut(s) 295, 780, 891
MflI RGATCY 1 cut(s) 891
MhlI GDGCHC 1 cut(s) 773
MluCI AATT 2 cut(s) 643, 788
Mly113I GGCGCC 1 cut(s) 120
MlyI GAGTC 2 cut(s) 335, 845
MnlI CCTC 6 cut(s) 54, 90, 194, 474, 760, 900
MseI TTAA 5 cut(s) 135, 450, 624, 660, 726
MspA1I CMGCKG 1 cut(s) 375
MspI CCGG 3 cut(s) 145, 173, 188
MspR9I CCNGG 1 cut(s) 174
MvnI CGCG 1 cut(s) 67
MwoI GCNNNNNNNGC 2 cut(s) 117, 193
NarI GGCGCC 1 cut(s) 120
NciI CCSGG 1 cut(s) 174
NcoI CCATGG 1 cut(s) 115
NdeI CATATG 1 cut(s) 667
NdeII GATC 3 cut(s) 295, 780, 891
NlaIII CATG 5 cut(s) 119, 250, 575, 621, 851
NlaIV GGNNCC 5 cut(s) 19, 121, 569, 692, 808
NmuCI GTSAC 1 cut(s) 596
PagI TCATGA 1 cut(s) 847
PauI GCGCGC 1 cut(s) 65
PciSI GCTCTTC 1 cut(s) 813
PfeI GAWTC 4 cut(s) 262, 488, 605, 629
Pfl23II CGTACG 1 cut(s) 128
PinAI ACCGGT 1 cut(s) 144
PkrI GCNGC 3 cut(s) 377, 478, 743
PleI GAGTC 2 cut(s) 334, 845
PluTI GGCGCC 1 cut(s) 123
PpsI GAGTC 2 cut(s) 334, 845
PspLI CGTACG 1 cut(s) 128
PspN4I GGNNCC 5 cut(s) 19, 121, 569, 692, 808
PspPI GGNCC 2 cut(s) 142, 731
PsuI RGATCY 1 cut(s) 891
PteI GCGCGC 1 cut(s) 65
RsaI GTAC 3 cut(s) 73, 130, 692
RsaNI GTAC 3 cut(s) 72, 129, 691
SapI GCTCTTC 1 cut(s) 813
SaqAI TTAA 5 cut(s) 135, 450, 624, 660, 726
SatI GCNGC 3 cut(s) 376, 477, 742
Sau3AI GATC 3 cut(s) 295, 780, 891
Sau96I GGNCC 2 cut(s) 142, 731
SchI GAGTC 2 cut(s) 335, 845
ScrFI CCNGG 1 cut(s) 174
SduI GDGCHC 1 cut(s) 773
SetI ASST 6 cut(s) 93, 511, 527, 559, 720, 825
SfaNI GCATC 1 cut(s) 570
SfcI CTRYAG 1 cut(s) 387
SfoI GGCGCC 1 cut(s) 121
SinI GGWCC 1 cut(s) 142
Sse9I AATT 2 cut(s) 643, 788
SsiI CCGC 4 cut(s) 22, 109, 179, 373
SspDI GGCGCC 1 cut(s) 119
SspMI CTAG 2 cut(s) 359, 380
StyD4I CCNGG 1 cut(s) 172
StyI CCWWGG 2 cut(s) 45, 115
TaaI ACNGT 1 cut(s) 756
TaiI ACGT 1 cut(s) 93
TaqI TCGA 2 cut(s) 95, 779
TasI AATT 2 cut(s) 643, 788
TatI WGTACW 1 cut(s) 71
TfiI GAWTC 4 cut(s) 262, 488, 605, 629
Tru1I TTAA 5 cut(s) 135, 450, 624, 660, 726
Tru9I TTAA 5 cut(s) 135, 450, 624, 660, 726
TseFI GTSAC 1 cut(s) 596
TseI GCWGC 3 cut(s) 375, 476, 741
Tsp45I GTSAC 1 cut(s) 596
TspDTI ATGAA 6 cut(s) 230, 263, 417, 537, 624, 684
TspGWI ACGGA 1 cut(s) 299
VpaK11BI GGWCC 1 cut(s) 142
XapI RAATTY 1 cut(s) 788
XcmI CCANNNNNNNNNTGG 1 cut(s) 452
XspI CTAG 2 cut(s) 359, 380
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.