RLG00000012842

Embryonic stem cell-specific 5-hydroxymethylcytosine-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr3
OG0013250
Physical Location & Seq
Reverse (-)
22960498 .. 22963445
2948 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000012842

Sequence Viewer

Length: 1158 bp
ATGGTGTGGCGTTTCGGTTCCCGCCTTGCTAGAGTTTTCTTCTTCCTGGAGATGTGTGGGAGGGCGCGCTGTACTCTCAGAGCCGACGACGTTTCTAGGGCTTGCTACCGCAACCATGGCGCCGTTCGTACGATTAACATGGACCGGTATCGGCCGTCGTATAATGTGTCGCCGGGAGCGGATTTGCCGGTCGTGCGTAAAGGAGATGGTGGGTCAGATGGTGAAGACGGCTTTGTTCTTCATTGCATGAAATGGGGACTGATTCCGAGTTTCACCAAGAAAACGGAGAAGCCTGATCATTACAGGATGTTCAATGCTCGCTCTGAGTCCATTTGTGAAAAGGCTTCTTTTCGTCGTCTAGTTCCTAAAAACCGCTGCCTAGTTGCTGTAGAAGGATTTTATGAATGGAAAAAAGATGGTTCTAAGAAACAGCCTTACTATGTCCATTATAAGGAGGGTCGGCCTCTTCTGTTTGCTGCTCTTTATGATTCGTGGGAGAACTCTGAAGGTGAGAAACTTTATACCTTCACTATCATTACAACTTCTTCATCTTCAGCTTTGGCATGGCTCCATGACAGGATGCCAGTTATTTTGGGTGACAAGGAATCTATTGATACATGGCTTTATGATTCTTCATCTTCCAATTTTGATAAGTTACTTAAACCATATGAAGGGTCTGATTTGGTATGGTACCCGGTAACACCAGCAATGGGTAAGGTGTCTTTTAATGGGCCAGAGTGCAGCAATGAGATACAGTTGAAGACAGAAGGCACTAACTCAATCACAAAATTTTTCCCAACAAAGGGAACCAAAAAAGAAGAGCTAAACCCAATTGATACTAGTTCTCATGACTCATCTGTGAAGACTGATTTTCCAGAAAGCATAAAAAAAGAACCTGAATACACAGAGGACAGGGTGCAACCATCCTTAACCGTGAAATGTGAAGAAGATTCAAAAAGTAGTGTCTCTACATTCTCTCAAGAGGAGGCATCTAAGGGGCAGACGAAGCGGGACTATGAAGAGTTCTTAGCTCATTCTAAACCGGTTCTTAATAAAGCTGATAAGATTTCTAGTGCTAGTCCAGCAAAGAAGAAGGTCAACCTGAAGACTTCTCAAGATAAGCAACCTACGCTATTTTCATACTTTGGGAAAAGCTAG
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

386

Amino Acids

43.77

Weight (kDa)

8.77

Isoelectric Point (pI)

47.67

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRAP PF02586 18 - 240 1.1e-70 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)
AanI TTATAA 1 cut(s) 450
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 5 cut(s) 22, 109, 179, 373, 1009
AcoI YGGCCR 1 cut(s) 152
AcsI RAATTY 1 cut(s) 788
AcuI CTGAAG 3 cut(s) 525, 537, 1124
AcyI GRCGYC 1 cut(s) 120
AfaI GTAC 3 cut(s) 73, 130, 692
AfiI CCNNNNNNNGG 5 cut(s) 451, 671, 710, 802, 803
AgeI ACCGGT 2 cut(s) 144, 1042
AgsI TTSAA 3 cut(s) 313, 760, 954
AhlI ACTAGT 1 cut(s) 839
AjnI CCWGG 1 cut(s) 45
AluBI AGCT 5 cut(s) 557, 823, 1031, 1058, 1155
AluI AGCT 5 cut(s) 557, 823, 1031, 1058, 1155
Alw26I GTCTC 1 cut(s) 970
AoxI GGCC 3 cut(s) 152, 461, 731
ApeKI GCWGC 3 cut(s) 375, 476, 741
ApoI RAATTY 1 cut(s) 788
AsiGI ACCGGT 2 cut(s) 144, 1042
Asp718I GGTACC 1 cut(s) 690
AspLEI GCGC 3 cut(s) 67, 69, 122
AspS9I GGNCC 2 cut(s) 142, 731
AsuC2I CCSGG 2 cut(s) 174, 695
AsuHPI GGTGA 4 cut(s) 233, 265, 521, 608
AvaII GGWCC 1 cut(s) 142
BanI GGYRCC 2 cut(s) 119, 690
BbsI GAAGAC 4 cut(s) 231, 767, 869, 1112
BbvI GCAGC 3 cut(s) 362, 463, 753
BccI CCATC 4 cut(s) 200, 212, 410, 931
BceAI ACGGC 3 cut(s) 107, 139, 244
BciT130I CCWGG 1 cut(s) 47
BclI TGATCA 1 cut(s) 295
BcnI CCSGG 2 cut(s) 174, 695
BcoDI GTCTC 1 cut(s) 970
BcuI ACTAGT 1 cut(s) 839
BfaI CTAG 8 cut(s) 30, 96, 359, 380, 840, 1071, 1077, 1156
BfmI CTRYAG 1 cut(s) 387
BfoI RGCGCY 1 cut(s) 123
BisI GCNGC 3 cut(s) 376, 477, 742
BlsI GCNGC 3 cut(s) 377, 478, 743
Bme1390I CCNGG 3 cut(s) 47, 174, 695
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 3 cut(s) 47, 174, 695
BmsI GCATC 2 cut(s) 570, 998
BpiI GAAGAC 4 cut(s) 231, 767, 869, 1112
BpmI CTGGAG 1 cut(s) 68
BpuEI CTTGAG 2 cut(s) 963, 1098
BpuMI CCSGG 2 cut(s) 174, 695
BsaHI GRCGYC 1 cut(s) 120
BsaJI CCNNGG 1 cut(s) 115
BsaWI WCCGGW 2 cut(s) 144, 1042
Bsc4I CCNNNNNNNGG 5 cut(s) 451, 671, 710, 802, 803
Bse118I RCCGGY 3 cut(s) 144, 187, 1042
Bse1I ACTGG 1 cut(s) 584
Bse3DI GCAATG 3 cut(s) 241, 714, 751
BseBI CCWGG 1 cut(s) 47
BseDI CCNNGG 1 cut(s) 115
BseGI GGATG 3 cut(s) 312, 585, 923
BseLI CCNNNNNNNGG 5 cut(s) 451, 671, 710, 802, 803
BseMI GCAATG 3 cut(s) 241, 714, 751
BseMII CTCAG 2 cut(s) 91, 315
BseNI ACTGG 1 cut(s) 584
BsePI GCGCGC 1 cut(s) 65
BseRI GAGGAG 1 cut(s) 998
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 2 cut(s) 144, 1042
BsiEI CGRYCG 2 cut(s) 155, 192
BsiSI CCGG 5 cut(s) 145, 173, 188, 695, 1043
BsiWI CGTACG 1 cut(s) 128
BslFI GGGAC 2 cut(s) 270, 1025
BslI CCNNNNNNNGG 5 cut(s) 451, 671, 710, 802, 803
BsmAI GTCTC 1 cut(s) 970
BsmFI GGGAC 2 cut(s) 270, 1025
BsnI GGCC 3 cut(s) 154, 463, 733
Bsp143I GATC 1 cut(s) 295
Bsp19I CCATGG 1 cut(s) 115
BspACI CCGC 5 cut(s) 22, 109, 179, 373, 1009
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
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 3 cut(s) 144, 187, 1042
BsrI ACTGG 1 cut(s) 584
BssAI RCCGGY 3 cut(s) 144, 187, 1042
BssECI CCNNGG 1 cut(s) 115
BssHII GCGCGC 1 cut(s) 65
BssMI GATC 1 cut(s) 295
BssNI GRCGYC 1 cut(s) 120
BssT1I CCWWGG 1 cut(s) 115
Bst2UI CCWGG 1 cut(s) 47
Bst4CI ACNGT 2 cut(s) 756, 934
Bst6I CTCTTC 3 cut(s) 471, 813, 1014
BstACI GRCGYC 1 cut(s) 120
BstC8I GCNNGC 3 cut(s) 67, 103, 319
BstDEI CTNAG 5 cut(s) 77, 324, 423, 993, 1027
BstDSI CCRYGG 1 cut(s) 115
BstF5I GGATG 3 cut(s) 312, 585, 923
BstFNI CGCG 1 cut(s) 67
BstH2I RGCGCY 1 cut(s) 123
BstHHI GCGC 3 cut(s) 67, 69, 122
BstKTI GATC 1 cut(s) 298
BstMAI GTCTC 1 cut(s) 970
BstMBI GATC 1 cut(s) 295
BstMCI CGRYCG 2 cut(s) 155, 192
BstMWI GCNNNNNNNGC 5 cut(s) 117, 193, 1006, 1082, 1129
BstNI CCWGG 1 cut(s) 47
BstSCI CCNGG 3 cut(s) 45, 172, 693
BstSFI CTRYAG 1 cut(s) 387
BstUI CGCG 1 cut(s) 67
BstV1I GCAGC 3 cut(s) 362, 463, 753
BstV2I GAAGAC 4 cut(s) 231, 767, 869, 1112
BstZI CGGCCG 1 cut(s) 152
BsuRI GGCC 3 cut(s) 154, 463, 733
BtgI CCRYGG 1 cut(s) 115
BtsCI GGATG 3 cut(s) 312, 585, 923
Cac8I GCNNGC 3 cut(s) 67, 103, 319
CciI TCATGA 1 cut(s) 847
CfoI GCGC 3 cut(s) 67, 69, 122
Cfr10I RCCGGY 3 cut(s) 144, 187, 1042
Cfr13I GGNCC 2 cut(s) 142, 731
Csp6I GTAC 3 cut(s) 72, 129, 691
CspAI ACCGGT 2 cut(s) 144, 1042
CviAII CATG 7 cut(s) 116, 139, 247, 564, 572, 618, 848
CviQI GTAC 3 cut(s) 72, 129, 691
DdeI CTNAG 5 cut(s) 77, 324, 423, 993, 1027
DinI GGCGCC 1 cut(s) 121
DpnI GATC 1 cut(s) 297
DpnII GATC 1 cut(s) 295
EaeI YGGCCR 1 cut(s) 152
EagI CGGCCG 1 cut(s) 152
Eam1104I CTCTTC 3 cut(s) 471, 813, 1014
EarI CTCTTC 3 cut(s) 471, 813, 1014
EclXI CGGCCG 1 cut(s) 152
Eco130I CCWWGG 1 cut(s) 115
Eco47I GGWCC 1 cut(s) 142
Eco52I CGGCCG 1 cut(s) 152
Eco57I CTGAAG 3 cut(s) 525, 537, 1124
EcoRII CCWGG 1 cut(s) 45
EcoT14I CCWWGG 1 cut(s) 115
EgeI GGCGCC 1 cut(s) 121
EheI GGCGCC 1 cut(s) 121
ErhI CCWWGG 1 cut(s) 115
FaeI CATG 7 cut(s) 119, 142, 250, 567, 575, 621, 851
FaqI GGGAC 2 cut(s) 270, 1025
FatI CATG 7 cut(s) 115, 138, 246, 563, 571, 617, 847
FauI CCCGC 2 cut(s) 29, 1002
FauNDI CATATG 1 cut(s) 667
FbaI TGATCA 1 cut(s) 295
Fnu4HI GCNGC 3 cut(s) 376, 477, 742
FokI GGATG 3 cut(s) 319, 592, 910
Fsp4HI GCNGC 3 cut(s) 376, 477, 742
FspBI CTAG 8 cut(s) 30, 96, 359, 380, 840, 1071, 1077, 1156
GlaI GCGC 3 cut(s) 66, 68, 121
GluI GCNGC 3 cut(s) 376, 477, 742
GsuI CTGGAG 1 cut(s) 68
HaeII RGCGCY 1 cut(s) 123
HaeIII GGCC 3 cut(s) 154, 463, 733
HapII CCGG 5 cut(s) 145, 173, 188, 695, 1043
HhaI GCGC 3 cut(s) 67, 69, 122
Hin1I GRCGYC 1 cut(s) 120
Hin1II CATG 7 cut(s) 119, 142, 250, 567, 575, 621, 851
Hin6I GCGC 3 cut(s) 65, 67, 120
HinP1I GCGC 3 cut(s) 65, 67, 120
HincII GTYRAC 1 cut(s) 1099
HindII GTYRAC 1 cut(s) 1099
HinfI GANTC 7 cut(s) 262, 326, 488, 605, 629, 851, 950
HpaII CCGG 5 cut(s) 145, 173, 188, 695, 1043
HphI GGTGA 4 cut(s) 233, 265, 521, 608
Hpy166II GTNNAC 1 cut(s) 1099
Hpy188I TCNGA 6 cut(s) 80, 217, 267, 325, 505, 679
Hpy188III TCNNGA 4 cut(s) 848, 875, 980, 1115
Hpy8I GTNNAC 1 cut(s) 1099
Hpy99I CGWCG 4 cut(s) 89, 92, 160, 357
HpyAV CCTTC 6 cut(s) 386, 500, 535, 665, 761, 1087
HpyCH4III ACNGT 2 cut(s) 756, 934
HpyCH4IV ACGT 1 cut(s) 90
HpyCH4V TGCA 3 cut(s) 246, 741, 919
HpyF10VI GCNNNNNNNGC 5 cut(s) 117, 193, 1006, 1082, 1129
HpyF3I CTNAG 5 cut(s) 77, 324, 423, 993, 1027
HpySE526I ACGT 1 cut(s) 90
Hsp92I GRCGYC 1 cut(s) 120
Hsp92II CATG 7 cut(s) 119, 142, 250, 567, 575, 621, 851
HspAI GCGC 3 cut(s) 65, 67, 120
KasI GGCGCC 1 cut(s) 119
KpnI GGTACC 1 cut(s) 694
Ksp22I TGATCA 1 cut(s) 295
Kzo9I GATC 1 cut(s) 295
LguI GCTCTTC 1 cut(s) 813
LmnI GCTCC 2 cut(s) 176, 573
Lsp1109I GCAGC 3 cut(s) 362, 463, 753
LweI GCATC 2 cut(s) 570, 998
MaeI CTAG 8 cut(s) 30, 96, 359, 380, 840, 1071, 1077, 1156
MaeII ACGT 1 cut(s) 90
MaeIII GTNAC 3 cut(s) 596, 654, 697
MalI GATC 1 cut(s) 297
MbiI CCGCTC 1 cut(s) 179
MboI GATC 1 cut(s) 295
MfeI CAATTG 1 cut(s) 831
MluCI AATT 3 cut(s) 643, 788, 831
Mly113I GGCGCC 1 cut(s) 120
MlyI GAGTC 2 cut(s) 335, 845
MnlI CCTC 6 cut(s) 54, 448, 474, 901, 976, 979
MseI TTAA 5 cut(s) 135, 660, 726, 929, 1050
MspA1I CMGCKG 1 cut(s) 375
MspI CCGG 5 cut(s) 145, 173, 188, 695, 1043
MspR9I CCNGG 3 cut(s) 47, 174, 695
MunI CAATTG 1 cut(s) 831
MvaI CCWGG 1 cut(s) 47
MvnI CGCG 1 cut(s) 67
MwoI GCNNNNNNNGC 5 cut(s) 117, 193, 1006, 1082, 1129
NarI GGCGCC 1 cut(s) 120
NciI CCSGG 2 cut(s) 174, 695
NcoI CCATGG 1 cut(s) 115
NdeI CATATG 1 cut(s) 667
NdeII GATC 1 cut(s) 295
NlaIII CATG 7 cut(s) 119, 142, 250, 567, 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 5 cut(s) 262, 488, 605, 629, 950
Pfl23II CGTACG 1 cut(s) 128
PfoI TCCNGGA 1 cut(s) 45
PinAI ACCGGT 2 cut(s) 144, 1042
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
PsiI TTATAA 1 cut(s) 450
Psp6I CCWGG 1 cut(s) 45
PspGI CCWGG 1 cut(s) 45
PspLI CGTACG 1 cut(s) 128
PspN4I GGNNCC 5 cut(s) 19, 121, 569, 692, 808
PspPI GGNCC 2 cut(s) 142, 731
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, 660, 726, 929, 1050
SatI GCNGC 3 cut(s) 376, 477, 742
Sau3AI GATC 1 cut(s) 295
Sau96I GGNCC 2 cut(s) 142, 731
SchI GAGTC 2 cut(s) 335, 845
ScrFI CCNGG 3 cut(s) 47, 174, 695
SfaNI GCATC 2 cut(s) 570, 998
SfcI CTRYAG 1 cut(s) 387
SfoI GGCGCC 1 cut(s) 121
SinI GGWCC 1 cut(s) 142
SmlI CTYRAG 2 cut(s) 978, 1113
SmoI CTYRAG 2 cut(s) 978, 1113
SpeI ACTAGT 1 cut(s) 839
Sse9I AATT 3 cut(s) 643, 788, 831
SsiI CCGC 5 cut(s) 22, 109, 179, 373, 1009
SspDI GGCGCC 1 cut(s) 119
SspMI CTAG 8 cut(s) 30, 96, 359, 380, 840, 1071, 1077, 1156
StyD4I CCNGG 3 cut(s) 45, 172, 693
StyI CCWWGG 1 cut(s) 115
TaaI ACNGT 2 cut(s) 756, 934
TaiI ACGT 1 cut(s) 93
TasI AATT 3 cut(s) 643, 788, 831
TatI WGTACW 1 cut(s) 71
TfiI GAWTC 5 cut(s) 262, 488, 605, 629, 950
Tru1I TTAA 5 cut(s) 135, 660, 726, 929, 1050
Tru9I TTAA 5 cut(s) 135, 660, 726, 929, 1050
TseFI GTSAC 1 cut(s) 596
TseI GCWGC 3 cut(s) 375, 476, 741
Tsp45I GTSAC 1 cut(s) 596
TspDTI ATGAA 8 cut(s) 230, 263, 417, 537, 624, 684, 1032, 1128
TspGWI ACGGA 1 cut(s) 299
VpaK11BI GGWCC 1 cut(s) 142
XapI RAATTY 1 cut(s) 788
XspI CTAG 8 cut(s) 30, 96, 359, 380, 840, 1071, 1077, 1156
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.