Rroxscaffold_7G00185750

Embryonic stem cell-specific 5-hydroxymethylcytosine-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000007
OG0013250
Physical Location & Seq
Reverse (-)
25174022 .. 25177596
3575 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_7G00185750.1

Sequence Viewer

Length: 1176 bp
ATGTGTGGGAGGGCGCGCTGTACTCTCAGAGCCGACGACGTTTCTAGGGCTTGCTACCGCAACCATGGCGCCGTTCGTACGATTAACATGGACCGGTATCGGCCGTCGTATAATGTGTCGCCGGGAGCGGATTTGCCGGTCGTGCGTAGAGGGGATGGTGGGTCAGATGGTGAAGACGGCGTTGTTCTTCAATCCATGAAATGGGGACTGATTCCGAGTTTCACCAAGAAAACGGAGAAGCCTGATCATTACAGGATGTTCAATGCTCGCTCTGAGTCCATTTGTGAAAAGGCTTCTTTTCGTCGTCTAGTTCCTAAAAAACCGCTGCCTAGTTGCTGTAGAAGGGTATGCTGTTTTTGCTATATGACTGGTTTCTCTTGCTCTACAGTATTTTATGAATGGAAAAAAGATGGTTCTAAGAAACAGCCTTACTATGTCCATTTTAAGGATGGTCGGCCTCTTCTGTTTGCTGCTCTTTATGATTGGTGGGAGAACTCTGAAGGTGAGAAACTTTATACCTTCACTATCATTACAACTTCTTCATCTTCAGCTTTGGCGTGGCTCCATGACAGGATGCCAGTTATTTTGGGTGACAAGGAATCTATTGATACATGGCTTAATGATTCTTCATCTTCCAATTTTGACAAGTTACTTAAACCATATGAAGGGTCTGATTTGGTATGGTACCCGGTAACACCAGCAATGGGTAAGGTGTCTTTTAATGGGCCAGAGTGCAGCAATGAGAGATCTGGAATTGTAGGGTTTGGGAGGGTATTAGAGTTACCTTCTTTGATACAGTTGAAGACAGAGGGCACTAACTCAATCACAAAATTTTTCTCAACAAAGGGAACCAAAAAAGAAGAGCTAAAGCCAAATGATACAAGTTCTCATGACTCATCTGTGAAGACTGATTTTCCAGAAAGCATAAAAAAAGAACCTGAATACACAGAGGACAGGGTGCAACCATCCTTCATTGTGAAATGTGAAGAAGATTCAAAAAGTAGTGTCTCTACATTCTCTCAAGAGGAGGCATCTAAGGGGCAGACGAAGCGGGACTATGAAGAGTTCTTAGCTGATTCTAAACCGGTTCGTGCTAGTCCAGCAAAGAAGAAGGTCAACCTGAAGACTTCTCAAGATAAGCAACCTACACTATTTTCATACTTTGGGAAAAGCTAG
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

391

Amino Acids

44.24

Weight (kDa)

8.82

Isoelectric Point (pI)

50.54

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SRAP PF02586 1 - 238 3.3e-61 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) 684
AccB1I GGYRCC 2 cut(s) 68, 684
AccB7I CCANNNNNTGG 1 cut(s) 201
AccBSI CCGCTC 1 cut(s) 128
AccII CGCG 1 cut(s) 16
AciI CCGC 4 cut(s) 58, 128, 323, 1051
AcoI YGGCCR 1 cut(s) 101
AcsI RAATTY 1 cut(s) 830
AcuI CTGAAG 3 cut(s) 519, 531, 1142
AcyI GRCGYC 1 cut(s) 69
AfaI GTAC 3 cut(s) 22, 79, 686
AfiI CCNNNNNNNGG 4 cut(s) 201, 445, 665, 704
AgeI ACCGGT 2 cut(s) 93, 1084
AgsI TTSAA 4 cut(s) 191, 262, 802, 996
AluBI AGCT 4 cut(s) 551, 865, 1073, 1173
AluI AGCT 4 cut(s) 551, 865, 1073, 1173
Alw26I GTCTC 1 cut(s) 1012
AoxI GGCC 3 cut(s) 101, 455, 725
ApeKI GCWGC 3 cut(s) 325, 470, 735
ApoI RAATTY 1 cut(s) 830
AsiGI ACCGGT 2 cut(s) 93, 1084
Asp718I GGTACC 1 cut(s) 684
AspLEI GCGC 3 cut(s) 16, 18, 71
AspS9I GGNCC 2 cut(s) 91, 725
AsuC2I CCSGG 2 cut(s) 123, 689
AsuHPI GGTGA 4 cut(s) 182, 214, 515, 602
AvaII GGWCC 1 cut(s) 91
BaeGI GKGCMC 1 cut(s) 815
BanI GGYRCC 2 cut(s) 68, 684
BbsI GAAGAC 4 cut(s) 180, 809, 911, 1130
BbvI GCAGC 3 cut(s) 312, 457, 747
BccI CCATC 5 cut(s) 149, 161, 404, 443, 973
BceAI ACGGC 3 cut(s) 56, 88, 193
BclI TGATCA 1 cut(s) 244
BcnI CCSGG 2 cut(s) 123, 689
BcoDI GTCTC 1 cut(s) 1012
BfaI CTAG 5 cut(s) 45, 308, 330, 1095, 1174
BfmI CTRYAG 2 cut(s) 337, 384
BfoI RGCGCY 1 cut(s) 72
BglII AGATCT 1 cut(s) 746
BisI GCNGC 3 cut(s) 326, 471, 736
BlsI GCNGC 3 cut(s) 327, 472, 737
Bme1390I CCNGG 2 cut(s) 123, 689
Bme18I GGWCC 1 cut(s) 91
BmgT120I GGNCC 2 cut(s) 91, 725
BmiI GGNNCC 4 cut(s) 70, 563, 686, 850
BmrFI CCNGG 2 cut(s) 123, 689
BmsI GCATC 2 cut(s) 564, 1040
BpiI GAAGAC 4 cut(s) 180, 809, 911, 1130
BpuEI CTTGAG 2 cut(s) 1005, 1116
BpuMI CCSGG 2 cut(s) 123, 689
BsaHI GRCGYC 1 cut(s) 69
BsaJI CCNNGG 1 cut(s) 64
BsaWI WCCGGW 2 cut(s) 93, 1084
Bsc4I CCNNNNNNNGG 4 cut(s) 201, 445, 665, 704
Bse118I RCCGGY 3 cut(s) 93, 136, 1084
Bse1I ACTGG 2 cut(s) 373, 578
Bse3DI GCAATG 2 cut(s) 708, 745
BseDI CCNNGG 1 cut(s) 64
BseGI GGATG 5 cut(s) 160, 261, 454, 579, 965
BseLI CCNNNNNNNGG 4 cut(s) 201, 445, 665, 704
BseMI GCAATG 2 cut(s) 708, 745
BseMII CTCAG 2 cut(s) 40, 264
BseNI ACTGG 2 cut(s) 373, 578
BsePI GCGCGC 1 cut(s) 14
BseRI GAGGAG 1 cut(s) 1040
BseSI GKGCMC 1 cut(s) 815
BseX3I CGGCCG 1 cut(s) 101
BseXI GCAGC 3 cut(s) 312, 457, 747
BsgI GTGCAG 1 cut(s) 754
Bsh1236I CGCG 1 cut(s) 16
Bsh1285I CGRYCG 2 cut(s) 104, 141
BshFI GGCC 3 cut(s) 103, 457, 727
BshNI GGYRCC 2 cut(s) 68, 684
BshTI ACCGGT 2 cut(s) 93, 1084
BsiEI CGRYCG 2 cut(s) 104, 141
BsiSI CCGG 5 cut(s) 94, 122, 137, 689, 1085
BsiWI CGTACG 1 cut(s) 77
BslFI GGGAC 2 cut(s) 219, 1067
BslI CCNNNNNNNGG 4 cut(s) 201, 445, 665, 704
BsmAI GTCTC 1 cut(s) 1012
BsmFI GGGAC 2 cut(s) 219, 1067
BsnI GGCC 3 cut(s) 103, 457, 727
Bsp1286I GDGCHC 1 cut(s) 815
Bsp143I GATC 2 cut(s) 244, 746
Bsp19I CCATGG 1 cut(s) 64
BspACI CCGC 4 cut(s) 58, 128, 323, 1051
BspANI GGCC 3 cut(s) 103, 457, 727
BspCNI CTCAG 2 cut(s) 39, 265
BspFNI CGCG 1 cut(s) 16
BspHI TCATGA 1 cut(s) 889
BspLI GGNNCC 4 cut(s) 70, 563, 686, 850
BspQI GCTCTTC 1 cut(s) 855
BspT107I GGYRCC 2 cut(s) 68, 684
BsrBI CCGCTC 1 cut(s) 128
BsrDI GCAATG 2 cut(s) 708, 745
BsrFI RCCGGY 3 cut(s) 93, 136, 1084
BsrI ACTGG 2 cut(s) 373, 578
BssAI RCCGGY 3 cut(s) 93, 136, 1084
BssECI CCNNGG 1 cut(s) 64
BssHII GCGCGC 1 cut(s) 14
BssMI GATC 2 cut(s) 244, 746
BssNI GRCGYC 1 cut(s) 69
BssT1I CCWWGG 1 cut(s) 64
Bst4CI ACNGT 2 cut(s) 388, 798
Bst6I CTCTTC 3 cut(s) 465, 855, 1056
BstACI GRCGYC 1 cut(s) 69
BstC8I GCNNGC 3 cut(s) 16, 52, 268
BstDEI CTNAG 5 cut(s) 26, 273, 417, 1035, 1069
BstDSI CCRYGG 1 cut(s) 64
BstF5I GGATG 5 cut(s) 160, 261, 454, 579, 965
BstFNI CGCG 1 cut(s) 16
BstH2I RGCGCY 1 cut(s) 72
BstHHI GCGC 3 cut(s) 16, 18, 71
BstKTI GATC 2 cut(s) 247, 749
BstMAI GTCTC 1 cut(s) 1012
BstMBI GATC 2 cut(s) 244, 746
BstMCI CGRYCG 2 cut(s) 104, 141
BstMWI GCNNNNNNNGC 5 cut(s) 66, 142, 357, 1048, 1100
BstSCI CCNGG 2 cut(s) 121, 687
BstSFI CTRYAG 2 cut(s) 337, 384
BstSLI GKGCMC 1 cut(s) 815
BstUI CGCG 1 cut(s) 16
BstV1I GCAGC 3 cut(s) 312, 457, 747
BstV2I GAAGAC 4 cut(s) 180, 809, 911, 1130
BstX2I RGATCY 1 cut(s) 746
BstYI RGATCY 1 cut(s) 746
BstZI CGGCCG 1 cut(s) 101
BsuRI GGCC 3 cut(s) 103, 457, 727
BtgI CCRYGG 1 cut(s) 64
BtsCI GGATG 5 cut(s) 160, 261, 454, 579, 965
Cac8I GCNNGC 3 cut(s) 16, 52, 268
CciI TCATGA 1 cut(s) 889
CfoI GCGC 3 cut(s) 16, 18, 71
Cfr10I RCCGGY 3 cut(s) 93, 136, 1084
Cfr13I GGNCC 2 cut(s) 91, 725
Csp6I GTAC 3 cut(s) 21, 78, 685
CspAI ACCGGT 2 cut(s) 93, 1084
CviAII CATG 6 cut(s) 65, 88, 196, 566, 612, 890
CviQI GTAC 3 cut(s) 21, 78, 685
DdeI CTNAG 5 cut(s) 26, 273, 417, 1035, 1069
DinI GGCGCC 1 cut(s) 70
DpnI GATC 2 cut(s) 246, 748
DpnII GATC 2 cut(s) 244, 746
EaeI YGGCCR 1 cut(s) 101
EagI CGGCCG 1 cut(s) 101
Eam1104I CTCTTC 3 cut(s) 465, 855, 1056
EarI CTCTTC 3 cut(s) 465, 855, 1056
EclXI CGGCCG 1 cut(s) 101
Eco130I CCWWGG 1 cut(s) 64
Eco47I GGWCC 1 cut(s) 91
Eco52I CGGCCG 1 cut(s) 101
Eco57I CTGAAG 3 cut(s) 519, 531, 1142
EcoT14I CCWWGG 1 cut(s) 64
EgeI GGCGCC 1 cut(s) 70
EheI GGCGCC 1 cut(s) 70
ErhI CCWWGG 1 cut(s) 64
FaeI CATG 6 cut(s) 68, 91, 199, 569, 615, 893
FaqI GGGAC 2 cut(s) 219, 1067
FatI CATG 6 cut(s) 64, 87, 195, 565, 611, 889
FauI CCCGC 1 cut(s) 1044
FauNDI CATATG 1 cut(s) 661
FbaI TGATCA 1 cut(s) 244
Fnu4HI GCNGC 3 cut(s) 326, 471, 736
FokI GGATG 5 cut(s) 167, 268, 461, 586, 952
Fsp4HI GCNGC 3 cut(s) 326, 471, 736
FspBI CTAG 5 cut(s) 45, 308, 330, 1095, 1174
GlaI GCGC 3 cut(s) 15, 17, 70
GluI GCNGC 3 cut(s) 326, 471, 736
HaeII RGCGCY 1 cut(s) 72
HaeIII GGCC 3 cut(s) 103, 457, 727
HapII CCGG 5 cut(s) 94, 122, 137, 689, 1085
HhaI GCGC 3 cut(s) 16, 18, 71
Hin1I GRCGYC 1 cut(s) 69
Hin1II CATG 6 cut(s) 68, 91, 199, 569, 615, 893
Hin6I GCGC 3 cut(s) 14, 16, 69
HinP1I GCGC 3 cut(s) 14, 16, 69
HincII GTYRAC 1 cut(s) 1117
HindII GTYRAC 1 cut(s) 1117
HinfI GANTC 7 cut(s) 211, 275, 599, 623, 893, 992, 1076
HpaII CCGG 5 cut(s) 94, 122, 137, 689, 1085
HphI GGTGA 4 cut(s) 182, 214, 515, 602
Hpy166II GTNNAC 1 cut(s) 1117
Hpy188I TCNGA 6 cut(s) 29, 166, 216, 274, 499, 673
Hpy188III TCNNGA 5 cut(s) 750, 890, 917, 1022, 1133
Hpy8I GTNNAC 1 cut(s) 1117
Hpy99I CGWCG 4 cut(s) 38, 41, 109, 306
HpyAV CCTTC 7 cut(s) 336, 494, 529, 659, 795, 979, 1105
HpyCH4III ACNGT 2 cut(s) 388, 798
HpyCH4IV ACGT 1 cut(s) 39
HpyCH4V TGCA 2 cut(s) 735, 961
HpyF10VI GCNNNNNNNGC 5 cut(s) 66, 142, 357, 1048, 1100
HpyF3I CTNAG 5 cut(s) 26, 273, 417, 1035, 1069
HpySE526I ACGT 1 cut(s) 39
Hsp92I GRCGYC 1 cut(s) 69
Hsp92II CATG 6 cut(s) 68, 91, 199, 569, 615, 893
HspAI GCGC 3 cut(s) 14, 16, 69
KasI GGCGCC 1 cut(s) 68
KpnI GGTACC 1 cut(s) 688
Ksp22I TGATCA 1 cut(s) 244
Kzo9I GATC 2 cut(s) 244, 746
LguI GCTCTTC 1 cut(s) 855
LmnI GCTCC 2 cut(s) 125, 567
Lsp1109I GCAGC 3 cut(s) 312, 457, 747
LweI GCATC 2 cut(s) 564, 1040
MaeI CTAG 5 cut(s) 45, 308, 330, 1095, 1174
MaeII ACGT 1 cut(s) 39
MaeIII GTNAC 4 cut(s) 590, 648, 691, 780
MalI GATC 2 cut(s) 246, 748
MbiI CCGCTC 1 cut(s) 128
MboI GATC 2 cut(s) 244, 746
MflI RGATCY 1 cut(s) 746
MhlI GDGCHC 1 cut(s) 815
MluCI AATT 3 cut(s) 637, 753, 830
Mly113I GGCGCC 1 cut(s) 69
MlyI GAGTC 2 cut(s) 284, 887
MnlI CCTC 8 cut(s) 3, 143, 468, 762, 802, 943, 1018, 1021
MseI TTAA 5 cut(s) 84, 444, 618, 654, 720
MspA1I CMGCKG 1 cut(s) 325
MspI CCGG 5 cut(s) 94, 122, 137, 689, 1085
MspR9I CCNGG 2 cut(s) 123, 689
MvnI CGCG 1 cut(s) 16
MwoI GCNNNNNNNGC 5 cut(s) 66, 142, 357, 1048, 1100
NarI GGCGCC 1 cut(s) 69
NciI CCSGG 2 cut(s) 123, 689
NcoI CCATGG 1 cut(s) 64
NdeI CATATG 1 cut(s) 661
NdeII GATC 2 cut(s) 244, 746
NlaIII CATG 6 cut(s) 68, 91, 199, 569, 615, 893
NlaIV GGNNCC 4 cut(s) 70, 563, 686, 850
NmuCI GTSAC 1 cut(s) 590
PagI TCATGA 1 cut(s) 889
PauI GCGCGC 1 cut(s) 14
PciSI GCTCTTC 1 cut(s) 855
PfeI GAWTC 5 cut(s) 211, 599, 623, 992, 1076
Pfl23II CGTACG 1 cut(s) 77
PflMI CCANNNNNTGG 1 cut(s) 201
PinAI ACCGGT 2 cut(s) 93, 1084
PkrI GCNGC 3 cut(s) 327, 472, 737
PleI GAGTC 2 cut(s) 283, 887
PluTI GGCGCC 1 cut(s) 72
PpsI GAGTC 2 cut(s) 283, 887
PspLI CGTACG 1 cut(s) 77
PspN4I GGNNCC 4 cut(s) 70, 563, 686, 850
PspPI GGNCC 2 cut(s) 91, 725
PsuI RGATCY 1 cut(s) 746
PteI GCGCGC 1 cut(s) 14
RsaI GTAC 3 cut(s) 22, 79, 686
RsaNI GTAC 3 cut(s) 21, 78, 685
SapI GCTCTTC 1 cut(s) 855
SaqAI TTAA 5 cut(s) 84, 444, 618, 654, 720
SatI GCNGC 3 cut(s) 326, 471, 736
Sau3AI GATC 2 cut(s) 244, 746
Sau96I GGNCC 2 cut(s) 91, 725
SchI GAGTC 2 cut(s) 284, 887
ScrFI CCNGG 2 cut(s) 123, 689
SduI GDGCHC 1 cut(s) 815
SfaNI GCATC 2 cut(s) 564, 1040
SfcI CTRYAG 2 cut(s) 337, 384
SfoI GGCGCC 1 cut(s) 70
SinI GGWCC 1 cut(s) 91
SmlI CTYRAG 2 cut(s) 1020, 1131
SmoI CTYRAG 2 cut(s) 1020, 1131
Sse9I AATT 3 cut(s) 637, 753, 830
SsiI CCGC 4 cut(s) 58, 128, 323, 1051
SspDI GGCGCC 1 cut(s) 68
SspMI CTAG 5 cut(s) 45, 308, 330, 1095, 1174
StyD4I CCNGG 2 cut(s) 121, 687
StyI CCWWGG 1 cut(s) 64
TaaI ACNGT 2 cut(s) 388, 798
TaiI ACGT 1 cut(s) 42
TasI AATT 3 cut(s) 637, 753, 830
TatI WGTACW 1 cut(s) 20
TfiI GAWTC 5 cut(s) 211, 599, 623, 992, 1076
Tru1I TTAA 5 cut(s) 84, 444, 618, 654, 720
Tru9I TTAA 5 cut(s) 84, 444, 618, 654, 720
TseFI GTSAC 1 cut(s) 590
TseI GCWGC 3 cut(s) 325, 470, 735
Tsp45I GTSAC 1 cut(s) 590
TspDTI ATGAA 8 cut(s) 212, 411, 531, 618, 678, 961, 1074, 1146
TspGWI ACGGA 1 cut(s) 248
Van91I CCANNNNNTGG 1 cut(s) 201
VpaK11BI GGWCC 1 cut(s) 91
XapI RAATTY 1 cut(s) 830
XcmI CCANNNNNNNNNTGG 1 cut(s) 446
XspI CTAG 5 cut(s) 45, 308, 330, 1095, 1174
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.