RchiOBHm_Chr2g0175561

yrdC domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_chinensis
2
OG0015282
Physical Location & Seq
Forward (+)
87713610 .. 87716178
2569 bp
Loading structure...
UTR
Exon/CDS
Intron
PRQ54263

Sequence Viewer

Length: 966 bp
ATGGCTTCTCGTCCAAAACTCTACGCCGGCGACTTAGCTTCATCTTTCAGCTTCTCCCGGTCTTTGCCAAACCCTAAGCTTTTCCCCTCTCCACGTGTCTACTTCGCCGCTCCGAAAAGCCGGCGGTTCCAAGTGTTGGCTTTCGCCGTCAAGCGGAGCCCTAAGCGTCTCAAATACTCCACTCCTCGCTTCACCAAGGAGGATGAGTTACTGTATGTCGGAGTTGATCCATCAGGAGTTGATAGCTGGAAATTGGAGCCGGTCATTGATCTTCTGAAACAAGGAGCGGTTGGGGTCATTCCTACTGACACTGTGTATGCAATAGTCTGTGACCCGAGAAACCACTCAGCCATTGATCGTCTTCGTAGAATCAAGAAAATCGAGTCTACAAAGCCCCTCACCATCTTGTGTCACTCGTTCCATGACATTGATCGATTTACAACAGGCTTCCCTCGTGGTGATTCCAAAGGTCATGCAAATATCTTCCGAGCTGTTAAGCAATGCTTACCTGGGCCTTATACCTTCATCCTAACTGCAACCAAAGAACTACCTAAGCAGTGTATAGGGTTTGGGACGGCAATTGCCAAATACAAATCTAGGAAAAATGTGGGTGTTCGTATGCCTGCTGATGCCATCTGTCAAGCGATACTGGAGAAGATGGATACACCATTGATTTCCACAAGTTGCAAGTGCCCGAAGGAAAATGAGTGGATTTTGGATCCAGTTGTTATAGCTGATACATATGGACCAGAGGGCCTTGATTTTGTCATTGATGGTGGGTTAAGAGTGGCTGATCCATCAACTGTGGTTGACATGACAGTGTTTCCTCCCAAGATCATACGACAAGGAAAGGGACCTCAATTACACTGGATGGTGGCTGAAGATGACAATGAAGATGAATATGAAGATGACAATGAACCTGCTGAGACAGTGGAAAGCTCATCTCCTCAACCACTCAGAAGATAA
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
Sua5_yciO_yrdC

Protein Analysis

321

Amino Acids

35.81

Weight (kDa)

8.71

Isoelectric Point (pI)

52.37

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sua5_yciO_yrdC PF01300 91 - 283 5.6e-43 Telomere recombination
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: OG0015282)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G01920 AT3G01920
fragaria_vesca FvH4_6g53521
malus_domestica MD09G1010800.v1.1
prunus_persica Prupe.3G306300_v2.0.a1
pyrus_communis pycom111g00900
rosa_chinensis RchiOBHm_Chr2g0175561
rosa_laevigata RLG00000022339
rosa_multiflora Rmu_sc0013970.1_g000004
rosa_roxburghii Rroxscaffold_2G00077220
rosa_rugosa Rorug02G0586500
rosa_samantha Rh2AG665400 Rh2BG676200 Rh2CG639400 Rh2DG690200
rosa_wichuraiana Rw2G054550

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
Acc36I ACCTGC 1 cut(s) 928
AccB7I CCANNNNNTGG 1 cut(s) 136
AccBSI CCGCTC 2 cut(s) 110, 287
AccI GTMKAC 2 cut(s) 99, 386
AciI CCGC 4 cut(s) 108, 124, 154, 287
AclWI GGATC 4 cut(s) 221, 713, 726, 788
AcuI CTGAAG 1 cut(s) 900
AcvI CACGTG 1 cut(s) 95
AfiI CCNNNNNNNGG 2 cut(s) 136, 153
AflIII ACRYGT 1 cut(s) 94
AjnI CCWGG 1 cut(s) 508
AluBI AGCT 7 cut(s) 38, 51, 79, 246, 491, 734, 939
AluI AGCT 7 cut(s) 38, 51, 79, 246, 491, 734, 939
Alw26I GTCTC 2 cut(s) 173, 920
AlwI GGATC 4 cut(s) 221, 713, 726, 788
Ama87I CYCGRG 1 cut(s) 334
AoxI GGCC 2 cut(s) 512, 754
AspS9I GGNCC 4 cut(s) 512, 746, 754, 854
AsuC2I CCSGG 1 cut(s) 58
AsuHPI GGTGA 3 cut(s) 184, 391, 470
AvaI CYCGRG 1 cut(s) 334
AvaII GGWCC 2 cut(s) 746, 854
BaeGI GKGCMC 1 cut(s) 695
BamHI GGATCC 1 cut(s) 718
BanII GRGCYC 1 cut(s) 161
BauI CACGAG 1 cut(s) 453
BbrPI CACGTG 1 cut(s) 95
BbsI GAAGAC 1 cut(s) 353
BccI CCATC 7 cut(s) 238, 410, 641, 652, 767, 805, 865
BceAI ACGGC 2 cut(s) 131, 591
BciT130I CCWGG 1 cut(s) 510
BciVI GTATCC 1 cut(s) 655
BcnI CCSGG 1 cut(s) 58
BcoDI GTCTC 2 cut(s) 173, 920
BfaI CTAG 1 cut(s) 597
BfuAI ACCTGC 1 cut(s) 928
BfuI GTATCC 1 cut(s) 655
BisI GCNGC 1 cut(s) 108
BlsI GCNGC 1 cut(s) 109
Bme1390I CCNGG 2 cut(s) 58, 510
Bme18I GGWCC 2 cut(s) 746, 854
BmeT110I CYCGRG 1 cut(s) 334
BmgT120I GGNCC 4 cut(s) 512, 746, 754, 854
BmiI GGNNCC 5 cut(s) 128, 158, 258, 720, 855
BmrFI CCNGG 2 cut(s) 58, 510
BmsI GCATC 1 cut(s) 619
BpiI GAAGAC 1 cut(s) 353
BpmI CTGGAG 1 cut(s) 671
Bpu10I CCTNAGC 3 cut(s) 75, 162, 552
BpuMI CCSGG 1 cut(s) 58
Bsa29I ATCGAT 1 cut(s) 433
BsaAI YACGTR 1 cut(s) 95
BsaJI CCNNGG 2 cut(s) 195, 509
BsaXI ACNNNNNCTCC 2 cut(s) 191, 221
Bsc4I CCNNNNNNNGG 2 cut(s) 136, 153
Bse118I RCCGGY 3 cut(s) 26, 120, 259
Bse1I ACTGG 3 cut(s) 654, 722, 872
Bse3DI GCAATG 1 cut(s) 506
BseBI CCWGG 1 cut(s) 510
BseCI ATCGAT 1 cut(s) 433
BseDI CCNNGG 2 cut(s) 195, 509
BseGI GGATG 3 cut(s) 208, 525, 876
BseLI CCNNNNNNNGG 2 cut(s) 136, 153
BseMI GCAATG 1 cut(s) 506
BseMII CTCAG 2 cut(s) 360, 915
BseNI ACTGG 3 cut(s) 654, 722, 872
BseRI GAGGAG 2 cut(s) 174, 936
BseSI GKGCMC 1 cut(s) 695
BshFI GGCC 2 cut(s) 514, 756
BshVI ATCGAT 1 cut(s) 433
BsiHKCI CYCGRG 1 cut(s) 334
BsiSI CCGG 4 cut(s) 27, 58, 121, 260
BslFI GGGAC 2 cut(s) 586, 867
BslI CCNNNNNNNGG 2 cut(s) 136, 153
BsmAI GTCTC 2 cut(s) 173, 920
BsmBI CGTCTC 1 cut(s) 173
BsmFI GGGAC 2 cut(s) 586, 867
BsnI GGCC 2 cut(s) 514, 756
BsoBI CYCGRG 1 cut(s) 334
Bsp1286I GDGCHC 2 cut(s) 161, 695
Bsp143I GATC 7 cut(s) 226, 268, 355, 430, 718, 793, 834
BspACI CCGC 4 cut(s) 108, 124, 154, 287
BspANI GGCC 2 cut(s) 514, 756
BspCNI CTCAG 2 cut(s) 359, 916
BspDI ATCGAT 1 cut(s) 433
BspLI GGNNCC 5 cut(s) 128, 158, 258, 720, 855
BspMI ACCTGC 1 cut(s) 928
BspPI GGATC 4 cut(s) 221, 713, 726, 788
BsrBI CCGCTC 2 cut(s) 110, 287
BsrDI GCAATG 1 cut(s) 506
BsrFI RCCGGY 3 cut(s) 26, 120, 259
BsrI ACTGG 3 cut(s) 654, 722, 872
BssAI RCCGGY 3 cut(s) 26, 120, 259
BssECI CCNNGG 2 cut(s) 195, 509
BssMI GATC 7 cut(s) 226, 268, 355, 430, 718, 793, 834
BssSI CACGAG 1 cut(s) 453
BssT1I CCWWGG 1 cut(s) 195
Bst2BI CACGAG 1 cut(s) 453
Bst2UI CCWGG 1 cut(s) 510
Bst4CI ACNGT 5 cut(s) 213, 313, 805, 820, 931
BstBAI YACGTR 1 cut(s) 95
BstC8I GCNNGC 3 cut(s) 28, 122, 624
BstDEI CTNAG 7 cut(s) 34, 75, 162, 346, 552, 924, 956
BstF5I GGATG 3 cut(s) 208, 525, 876
BstKTI GATC 7 cut(s) 229, 271, 358, 433, 721, 796, 837
BstMAI GTCTC 2 cut(s) 173, 920
BstMBI GATC 7 cut(s) 226, 268, 355, 430, 718, 793, 834
BstNI CCWGG 1 cut(s) 510
BstSCI CCNGG 2 cut(s) 56, 508
BstSLI GKGCMC 1 cut(s) 695
BstV2I GAAGAC 1 cut(s) 353
BstX2I RGATCY 1 cut(s) 718
BstYI RGATCY 1 cut(s) 718
Bsu15I ATCGAT 1 cut(s) 433
BsuI GTATCC 1 cut(s) 655
BsuRI GGCC 2 cut(s) 514, 756
BsuTUI ATCGAT 1 cut(s) 433
BtsCI GGATG 3 cut(s) 208, 525, 876
BtsI GCAGTG 1 cut(s) 563
BtsIMutI CAGTG 5 cut(s) 309, 563, 825, 865, 936
BveI ACCTGC 1 cut(s) 928
Cac8I GCNNGC 3 cut(s) 28, 122, 624
Cfr10I RCCGGY 3 cut(s) 26, 120, 259
Cfr13I GGNCC 4 cut(s) 512, 746, 754, 854
ClaI ATCGAT 1 cut(s) 433
CseI GACGC 1 cut(s) 155
CviAII CATG 3 cut(s) 422, 473, 814
DdeI CTNAG 7 cut(s) 34, 75, 162, 346, 552, 924, 956
DpnI GATC 7 cut(s) 228, 270, 357, 432, 720, 795, 836
DpnII GATC 7 cut(s) 226, 268, 355, 430, 718, 793, 834
Eco130I CCWWGG 1 cut(s) 195
Eco24I GRGCYC 1 cut(s) 161
Eco47I GGWCC 2 cut(s) 746, 854
Eco57I CTGAAG 1 cut(s) 900
Eco72I CACGTG 1 cut(s) 95
Eco88I CYCGRG 1 cut(s) 334
EcoO109I RGGNCCY 2 cut(s) 754, 854
EcoRII CCWGG 1 cut(s) 508
EcoT14I CCWWGG 1 cut(s) 195
EcoT38I GRGCYC 1 cut(s) 161
ErhI CCWWGG 1 cut(s) 195
Esp3I CGTCTC 1 cut(s) 173
FaeI CATG 3 cut(s) 425, 476, 817
FalI AAGNNNNNCTT 2 cut(s) 488, 520
FaqI GGGAC 2 cut(s) 586, 867
FatI CATG 3 cut(s) 421, 472, 813
FauNDI CATATG 1 cut(s) 742
FblI GTMKAC 2 cut(s) 99, 386
Fnu4HI GCNGC 1 cut(s) 108
FokI GGATG 3 cut(s) 215, 512, 883
FriOI GRGCYC 1 cut(s) 161
Fsp4HI GCNGC 1 cut(s) 108
FspBI CTAG 1 cut(s) 597
GluI GCNGC 1 cut(s) 108
GsuI CTGGAG 1 cut(s) 671
HaeIII GGCC 2 cut(s) 514, 756
HapII CCGG 4 cut(s) 27, 58, 121, 260
HgaI GACGC 1 cut(s) 155
Hin1II CATG 3 cut(s) 425, 476, 817
HincII GTYRAC 1 cut(s) 811
HindII GTYRAC 1 cut(s) 811
HindIII AAGCTT 1 cut(s) 77
HinfI GANTC 3 cut(s) 369, 383, 461
HpaII CCGG 4 cut(s) 27, 58, 121, 260
HphI GGTGA 3 cut(s) 184, 391, 470
Hpy166II GTNNAC 3 cut(s) 100, 387, 811
Hpy188I TCNGA 5 cut(s) 114, 221, 276, 488, 959
Hpy188III TCNNGA 2 cut(s) 234, 373
Hpy8I GTNNAC 3 cut(s) 100, 387, 811
HpyAV CCTTC 2 cut(s) 532, 691
HpyCH4III ACNGT 5 cut(s) 213, 313, 805, 820, 931
HpyCH4IV ACGT 1 cut(s) 94
HpyCH4V TGCA 4 cut(s) 320, 476, 536, 687
HpyF3I CTNAG 7 cut(s) 34, 75, 162, 346, 552, 924, 956
HpySE526I ACGT 1 cut(s) 94
Hsp92II CATG 3 cut(s) 425, 476, 817
KroI GCCGGC 2 cut(s) 26, 120
KroNI GCCGGC 2 cut(s) 28, 122
Kzo9I GATC 7 cut(s) 226, 268, 355, 430, 718, 793, 834
LmnI GCTCC 4 cut(s) 115, 156, 256, 284
LweI GCATC 1 cut(s) 619
MaeI CTAG 1 cut(s) 597
MaeII ACGT 1 cut(s) 94
MaeIII GTNAC 3 cut(s) 207, 329, 410
MalI GATC 7 cut(s) 228, 270, 357, 432, 720, 795, 836
MbiI CCGCTC 2 cut(s) 110, 287
MboI GATC 7 cut(s) 226, 268, 355, 430, 718, 793, 834
MboII GAAGA 7 cut(s) 263, 353, 475, 667, 893, 905, 917
MfeI CAATTG 1 cut(s) 579
MflI RGATCY 1 cut(s) 718
MhlI GDGCHC 2 cut(s) 161, 695
MluCI AATT 3 cut(s) 251, 579, 860
MlyI GAGTC 1 cut(s) 392
MmeI TCCRAC 1 cut(s) 199
MnlI CCTC 9 cut(s) 97, 193, 195, 407, 462, 745, 837, 867, 957
MreI CGCCGGCG 1 cut(s) 26
MroNI GCCGGC 2 cut(s) 26, 120
MseI TTAA 2 cut(s) 495, 782
MslI CAYNNNNRTG 1 cut(s) 818
MspI CCGG 4 cut(s) 27, 58, 121, 260
MspR9I CCNGG 2 cut(s) 58, 510
MunI CAATTG 1 cut(s) 579
MvaI CCWGG 1 cut(s) 510
NaeI GCCGGC 2 cut(s) 28, 122
NciI CCSGG 1 cut(s) 58
NdeI CATATG 1 cut(s) 742
NdeII GATC 7 cut(s) 226, 268, 355, 430, 718, 793, 834
NgoMIV GCCGGC 2 cut(s) 26, 120
NlaIII CATG 3 cut(s) 425, 476, 817
NlaIV GGNNCC 5 cut(s) 128, 158, 258, 720, 855
NmuCI GTSAC 2 cut(s) 329, 410
PdiI GCCGGC 2 cut(s) 28, 122
PfeI GAWTC 2 cut(s) 369, 461
PflMI CCANNNNNTGG 1 cut(s) 136
PkrI GCNGC 1 cut(s) 109
PleI GAGTC 1 cut(s) 391
PmaCI CACGTG 1 cut(s) 95
PmlI CACGTG 1 cut(s) 95
PpsI GAGTC 1 cut(s) 391
Ppu21I YACGTR 1 cut(s) 95
PpuMI RGGWCCY 1 cut(s) 854
Psp5II RGGWCCY 1 cut(s) 854
Psp6I CCWGG 1 cut(s) 508
PspCI CACGTG 1 cut(s) 95
PspGI CCWGG 1 cut(s) 508
PspN4I GGNNCC 5 cut(s) 128, 158, 258, 720, 855
PspPI GGNCC 4 cut(s) 512, 746, 754, 854
PspPPI RGGWCCY 1 cut(s) 854
PsuI RGATCY 1 cut(s) 718
RseI CAYNNNNRTG 1 cut(s) 818
SaqAI TTAA 2 cut(s) 495, 782
SatI GCNGC 1 cut(s) 108
Sau3AI GATC 7 cut(s) 226, 268, 355, 430, 718, 793, 834
Sau96I GGNCC 4 cut(s) 512, 746, 754, 854
SchI GAGTC 1 cut(s) 392
ScrFI CCNGG 2 cut(s) 58, 510
SduI GDGCHC 2 cut(s) 161, 695
SfaNI GCATC 1 cut(s) 619
SgrAI CRCCGGYG 1 cut(s) 26
SinI GGWCC 2 cut(s) 746, 854
SmiMI CAYNNNNRTG 1 cut(s) 818
Sse9I AATT 3 cut(s) 251, 579, 860
SsiI CCGC 4 cut(s) 108, 124, 154, 287
SspMI CTAG 1 cut(s) 597
StyD4I CCNGG 2 cut(s) 56, 508
StyI CCWWGG 1 cut(s) 195
TaaI ACNGT 5 cut(s) 213, 313, 805, 820, 931
TaiI ACGT 1 cut(s) 97
TaqI TCGA 2 cut(s) 381, 433
TasI AATT 3 cut(s) 251, 579, 860
TauI GCSGC 1 cut(s) 110
TfiI GAWTC 2 cut(s) 369, 461
Tru1I TTAA 2 cut(s) 495, 782
Tru9I TTAA 2 cut(s) 495, 782
TscAI CASTG 5 cut(s) 316, 563, 825, 872, 936
TseFI GTSAC 2 cut(s) 329, 410
Tsp45I GTSAC 2 cut(s) 329, 410
TspDTI ATGAA 6 cut(s) 30, 514, 906, 912, 918, 930
TspRI CASTG 5 cut(s) 316, 563, 825, 872, 936
Van91I CCANNNNNTGG 1 cut(s) 136
VpaK11BI GGWCC 2 cut(s) 746, 854
XmiI GTMKAC 2 cut(s) 99, 386
XspI CTAG 1 cut(s) 597
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.