RLG00000022339

yrdC domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr4
OG0015282
Physical Location & Seq
Forward (+)
82681391 .. 82683649
2259 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000022339

Sequence Viewer

Length: 975 bp
ATGGCAATGGCTTCTCCTTCTCCTTCTCGGTACGCCGGCGACTTAGCTTCATCTTTCAGCTTCTCCCGGTCTTTGCCAAACCCTAAGCTTTTCCCCTCTCCACGTGTCTACTTCGCCGCTCCGAAAAGCCGCCGGTTCCAAGTGTTGGCTTTCGCCGTCAAGCGGAGCCCTAAGCGTCTCAAATACTCCACTCCTCGCTTCACCAAGGAGGATGAGTTACTCTATGTTGGAGTTGATCCATCAGGAGTTGATAGCTGGAAATTGGAGCAGGTCATTGATCTTCTGAAACAAGGAGCGGTTGGGGTCATTCCTACTGACACTGTGTATGCCATAGTCTGTGACCCGAGAAACCACTCAGCCATTGATCGTCTTCGTAGAATCAAGAAAATCGAGTCTACAAAGCCCCTCACCATCTTGTGTCACTCGTTCCATGACATTGATCGATTTACAACAGGCTTCCCTCGTGGTGATTCCAAAGGTCATGCAAATATCTTCCGAGCTGTTAAGCAATGCTTACCTGGGCCTTATACCTTCATCCTAACTGCAACCAAAGAACTACCTAAGCAGTGTATAGGGTTTGGGACGGCAATTGCCAAATACAAATCTAGGAAAAATGTGGGTGTTCGTATGCCTGCTGATACCATCTGTCAAGCGATACTGGAGAAGATGGATACACCATTGATTTCCACAAGTTGCAAGTGCCCGAAGGAAAATGAGTGGATTTTGGATCCAGTTGTTATAGCTGATACATATGGACCTGAGGGCCTTGATTTTGTCATTGATGGTGGGTTAAGAGTGGCTGATCCATCAACTGTGGTTGACATGACAGTGTTTCCTCCCAAGATCATACGACAAGGAAAGGGACCTCAATTACACTGGATGGTGGCTGAAGATGACAATGAAGATGAATATGAAGATGACAATGAACCTGCTGAGACAGTGGAAAGCTCATCTCCTCTACCACTCAGAAGATAA
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

325

Amino Acids

36.09

Weight (kDa)

8.57

Isoelectric Point (pI)

53.8

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sua5_yciO_yrdC PF01300 94 - 286 6.5e-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 2 cut(s) 259, 937
AccB7I CCANNNNNTGG 1 cut(s) 145
AccBSI CCGCTC 2 cut(s) 119, 296
AccI GTMKAC 2 cut(s) 108, 395
AciI CCGC 4 cut(s) 117, 130, 163, 296
AclWI GGATC 4 cut(s) 230, 722, 735, 797
AcuI CTGAAG 1 cut(s) 909
AcvI CACGTG 1 cut(s) 104
AfaI GTAC 1 cut(s) 32
AfiI CCNNNNNNNGG 2 cut(s) 145, 162
AflIII ACRYGT 1 cut(s) 103
AjnI CCWGG 1 cut(s) 517
AluBI AGCT 7 cut(s) 47, 60, 88, 255, 500, 743, 948
AluI AGCT 7 cut(s) 47, 60, 88, 255, 500, 743, 948
Alw26I GTCTC 2 cut(s) 182, 929
AlwI GGATC 4 cut(s) 230, 722, 735, 797
Ama87I CYCGRG 1 cut(s) 343
AoxI GGCC 2 cut(s) 521, 763
AspS9I GGNCC 4 cut(s) 521, 755, 763, 863
AsuC2I CCSGG 1 cut(s) 67
AsuHPI GGTGA 3 cut(s) 193, 400, 479
AvaI CYCGRG 1 cut(s) 343
AvaII GGWCC 2 cut(s) 755, 863
AxyI CCTNAGG 1 cut(s) 759
BaeGI GKGCMC 1 cut(s) 704
BamHI GGATCC 1 cut(s) 727
BanII GRGCYC 1 cut(s) 170
BauI CACGAG 1 cut(s) 462
BbrPI CACGTG 1 cut(s) 104
BbsI GAAGAC 1 cut(s) 362
BccI CCATC 7 cut(s) 247, 419, 650, 661, 776, 814, 874
BceAI ACGGC 2 cut(s) 140, 600
BciT130I CCWGG 1 cut(s) 519
BciVI GTATCC 1 cut(s) 664
BcnI CCSGG 1 cut(s) 67
BcoDI GTCTC 2 cut(s) 182, 929
BfaI CTAG 1 cut(s) 606
BfuAI ACCTGC 2 cut(s) 259, 937
BfuI GTATCC 1 cut(s) 664
BisI GCNGC 2 cut(s) 117, 130
BlsI GCNGC 2 cut(s) 118, 131
Bme1390I CCNGG 2 cut(s) 67, 519
Bme18I GGWCC 2 cut(s) 755, 863
BmeT110I CYCGRG 1 cut(s) 343
BmgT120I GGNCC 4 cut(s) 521, 755, 763, 863
BmiI GGNNCC 4 cut(s) 137, 167, 729, 864
BmrFI CCNGG 2 cut(s) 67, 519
BpiI GAAGAC 1 cut(s) 362
BpmI CTGGAG 1 cut(s) 680
Bpu10I CCTNAGC 3 cut(s) 84, 171, 561
BpuMI CCSGG 1 cut(s) 67
Bsa29I ATCGAT 1 cut(s) 442
BsaAI YACGTR 1 cut(s) 104
BsaJI CCNNGG 2 cut(s) 204, 518
BsaXI ACNNNNNCTCC 2 cut(s) 200, 230
Bsc4I CCNNNNNNNGG 2 cut(s) 145, 162
Bse118I RCCGGY 2 cut(s) 35, 132
Bse1I ACTGG 3 cut(s) 663, 731, 881
Bse21I CCTNAGG 1 cut(s) 759
Bse3DI GCAATG 2 cut(s) 12, 515
BseBI CCWGG 1 cut(s) 519
BseCI ATCGAT 1 cut(s) 442
BseDI CCNNGG 2 cut(s) 204, 518
BseGI GGATG 3 cut(s) 217, 534, 885
BseLI CCNNNNNNNGG 2 cut(s) 145, 162
BseMI GCAATG 2 cut(s) 12, 515
BseMII CTCAG 3 cut(s) 369, 750, 924
BseNI ACTGG 3 cut(s) 663, 731, 881
BseRI GAGGAG 2 cut(s) 183, 945
BseSI GKGCMC 1 cut(s) 704
BshFI GGCC 2 cut(s) 523, 765
BshVI ATCGAT 1 cut(s) 442
BsiHKCI CYCGRG 1 cut(s) 343
BsiSI CCGG 3 cut(s) 36, 67, 133
BslFI GGGAC 2 cut(s) 595, 876
BslI CCNNNNNNNGG 2 cut(s) 145, 162
BsmAI GTCTC 2 cut(s) 182, 929
BsmBI CGTCTC 1 cut(s) 182
BsmFI GGGAC 2 cut(s) 595, 876
BsnI GGCC 2 cut(s) 523, 765
BsoBI CYCGRG 1 cut(s) 343
Bsp1286I GDGCHC 2 cut(s) 170, 704
Bsp143I GATC 7 cut(s) 235, 277, 364, 439, 727, 802, 843
BspACI CCGC 4 cut(s) 117, 130, 163, 296
BspANI GGCC 2 cut(s) 523, 765
BspCNI CTCAG 3 cut(s) 368, 751, 925
BspDI ATCGAT 1 cut(s) 442
BspLI GGNNCC 4 cut(s) 137, 167, 729, 864
BspMI ACCTGC 2 cut(s) 259, 937
BspPI GGATC 4 cut(s) 230, 722, 735, 797
BsrBI CCGCTC 2 cut(s) 119, 296
BsrDI GCAATG 2 cut(s) 12, 515
BsrFI RCCGGY 2 cut(s) 35, 132
BsrI ACTGG 3 cut(s) 663, 731, 881
BssAI RCCGGY 2 cut(s) 35, 132
BssECI CCNNGG 2 cut(s) 204, 518
BssMI GATC 7 cut(s) 235, 277, 364, 439, 727, 802, 843
BssSI CACGAG 1 cut(s) 462
BssT1I CCWWGG 1 cut(s) 204
Bst2BI CACGAG 1 cut(s) 462
Bst2UI CCWGG 1 cut(s) 519
Bst4CI ACNGT 4 cut(s) 322, 814, 829, 940
BstBAI YACGTR 1 cut(s) 104
BstC8I GCNNGC 2 cut(s) 37, 633
BstDEI CTNAG 8 cut(s) 43, 84, 171, 355, 561, 759, 933, 965
BstF5I GGATG 3 cut(s) 217, 534, 885
BstKTI GATC 7 cut(s) 238, 280, 367, 442, 730, 805, 846
BstMAI GTCTC 2 cut(s) 182, 929
BstMBI GATC 7 cut(s) 235, 277, 364, 439, 727, 802, 843
BstNI CCWGG 1 cut(s) 519
BstSCI CCNGG 2 cut(s) 65, 517
BstSLI GKGCMC 1 cut(s) 704
BstV2I GAAGAC 1 cut(s) 362
BstX2I RGATCY 1 cut(s) 727
BstYI RGATCY 1 cut(s) 727
Bsu15I ATCGAT 1 cut(s) 442
Bsu36I CCTNAGG 1 cut(s) 759
BsuI GTATCC 1 cut(s) 664
BsuRI GGCC 2 cut(s) 523, 765
BsuTUI ATCGAT 1 cut(s) 442
BtsCI GGATG 3 cut(s) 217, 534, 885
BtsI GCAGTG 1 cut(s) 572
BtsIMutI CAGTG 5 cut(s) 318, 572, 834, 874, 945
BveI ACCTGC 2 cut(s) 259, 937
Cac8I GCNNGC 2 cut(s) 37, 633
Cfr10I RCCGGY 2 cut(s) 35, 132
Cfr13I GGNCC 4 cut(s) 521, 755, 763, 863
ClaI ATCGAT 1 cut(s) 442
CseI GACGC 1 cut(s) 164
Csp6I GTAC 1 cut(s) 31
CviAII CATG 3 cut(s) 431, 482, 823
CviQI GTAC 1 cut(s) 31
DdeI CTNAG 8 cut(s) 43, 84, 171, 355, 561, 759, 933, 965
DpnI GATC 7 cut(s) 237, 279, 366, 441, 729, 804, 845
DpnII GATC 7 cut(s) 235, 277, 364, 439, 727, 802, 843
Eco130I CCWWGG 1 cut(s) 204
Eco24I GRGCYC 1 cut(s) 170
Eco47I GGWCC 2 cut(s) 755, 863
Eco57I CTGAAG 1 cut(s) 909
Eco72I CACGTG 1 cut(s) 104
Eco81I CCTNAGG 1 cut(s) 759
Eco88I CYCGRG 1 cut(s) 343
EcoO109I RGGNCCY 2 cut(s) 763, 863
EcoRII CCWGG 1 cut(s) 517
EcoT14I CCWWGG 1 cut(s) 204
EcoT38I GRGCYC 1 cut(s) 170
ErhI CCWWGG 1 cut(s) 204
Esp3I CGTCTC 1 cut(s) 182
FaeI CATG 3 cut(s) 434, 485, 826
FalI AAGNNNNNCTT 2 cut(s) 497, 529
FaqI GGGAC 2 cut(s) 595, 876
FatI CATG 3 cut(s) 430, 481, 822
FauNDI CATATG 1 cut(s) 751
FblI GTMKAC 2 cut(s) 108, 395
Fnu4HI GCNGC 2 cut(s) 117, 130
FokI GGATG 3 cut(s) 224, 521, 892
FriOI GRGCYC 1 cut(s) 170
Fsp4HI GCNGC 2 cut(s) 117, 130
FspBI CTAG 1 cut(s) 606
GluI GCNGC 2 cut(s) 117, 130
GsuI CTGGAG 1 cut(s) 680
HaeIII GGCC 2 cut(s) 523, 765
HapII CCGG 3 cut(s) 36, 67, 133
HgaI GACGC 1 cut(s) 164
Hin1II CATG 3 cut(s) 434, 485, 826
HincII GTYRAC 1 cut(s) 820
HindII GTYRAC 1 cut(s) 820
HindIII AAGCTT 1 cut(s) 86
HinfI GANTC 3 cut(s) 378, 392, 470
HpaII CCGG 3 cut(s) 36, 67, 133
HphI GGTGA 3 cut(s) 193, 400, 479
Hpy166II GTNNAC 3 cut(s) 109, 396, 820
Hpy188I TCNGA 4 cut(s) 123, 285, 497, 968
Hpy188III TCNNGA 2 cut(s) 243, 382
Hpy8I GTNNAC 3 cut(s) 109, 396, 820
HpyAV CCTTC 4 cut(s) 27, 33, 541, 700
HpyCH4III ACNGT 4 cut(s) 322, 814, 829, 940
HpyCH4IV ACGT 1 cut(s) 103
HpyCH4V TGCA 3 cut(s) 485, 545, 696
HpyF3I CTNAG 8 cut(s) 43, 84, 171, 355, 561, 759, 933, 965
HpySE526I ACGT 1 cut(s) 103
Hsp92II CATG 3 cut(s) 434, 485, 826
KroI GCCGGC 1 cut(s) 35
KroNI GCCGGC 1 cut(s) 37
Kzo9I GATC 7 cut(s) 235, 277, 364, 439, 727, 802, 843
LmnI GCTCC 4 cut(s) 124, 165, 265, 293
MaeI CTAG 1 cut(s) 606
MaeII ACGT 1 cut(s) 103
MaeIII GTNAC 3 cut(s) 216, 338, 419
MalI GATC 7 cut(s) 237, 279, 366, 441, 729, 804, 845
MbiI CCGCTC 2 cut(s) 119, 296
MboI GATC 7 cut(s) 235, 277, 364, 439, 727, 802, 843
MboII GAAGA 7 cut(s) 272, 362, 484, 676, 902, 914, 926
MfeI CAATTG 1 cut(s) 588
MflI RGATCY 1 cut(s) 727
MhlI GDGCHC 2 cut(s) 170, 704
MluCI AATT 3 cut(s) 260, 588, 869
MlyI GAGTC 1 cut(s) 401
MmeI TCCRAC 1 cut(s) 208
MnlI CCTC 9 cut(s) 106, 202, 204, 416, 471, 754, 846, 876, 966
MreI CGCCGGCG 1 cut(s) 35
MroNI GCCGGC 1 cut(s) 35
MseI TTAA 2 cut(s) 504, 791
MslI CAYNNNNRTG 1 cut(s) 827
MspI CCGG 3 cut(s) 36, 67, 133
MspR9I CCNGG 2 cut(s) 67, 519
MunI CAATTG 1 cut(s) 588
MvaI CCWGG 1 cut(s) 519
NaeI GCCGGC 1 cut(s) 37
NciI CCSGG 1 cut(s) 67
NdeI CATATG 1 cut(s) 751
NdeII GATC 7 cut(s) 235, 277, 364, 439, 727, 802, 843
NgoMIV GCCGGC 1 cut(s) 35
NlaIII CATG 3 cut(s) 434, 485, 826
NlaIV GGNNCC 4 cut(s) 137, 167, 729, 864
NmuCI GTSAC 2 cut(s) 338, 419
PdiI GCCGGC 1 cut(s) 37
PfeI GAWTC 2 cut(s) 378, 470
PflMI CCANNNNNTGG 1 cut(s) 145
PkrI GCNGC 2 cut(s) 118, 131
PleI GAGTC 1 cut(s) 400
PmaCI CACGTG 1 cut(s) 104
PmlI CACGTG 1 cut(s) 104
PpsI GAGTC 1 cut(s) 400
Ppu21I YACGTR 1 cut(s) 104
PpuMI RGGWCCY 1 cut(s) 863
Psp5II RGGWCCY 1 cut(s) 863
Psp6I CCWGG 1 cut(s) 517
PspCI CACGTG 1 cut(s) 104
PspGI CCWGG 1 cut(s) 517
PspN4I GGNNCC 4 cut(s) 137, 167, 729, 864
PspPI GGNCC 4 cut(s) 521, 755, 763, 863
PspPPI RGGWCCY 1 cut(s) 863
PsuI RGATCY 1 cut(s) 727
RsaI GTAC 1 cut(s) 32
RsaNI GTAC 1 cut(s) 31
RseI CAYNNNNRTG 1 cut(s) 827
SaqAI TTAA 2 cut(s) 504, 791
SatI GCNGC 2 cut(s) 117, 130
Sau3AI GATC 7 cut(s) 235, 277, 364, 439, 727, 802, 843
Sau96I GGNCC 4 cut(s) 521, 755, 763, 863
SchI GAGTC 1 cut(s) 401
ScrFI CCNGG 2 cut(s) 67, 519
SduI GDGCHC 2 cut(s) 170, 704
SgrAI CRCCGGYG 1 cut(s) 35
SinI GGWCC 2 cut(s) 755, 863
SmiMI CAYNNNNRTG 1 cut(s) 827
Sse9I AATT 3 cut(s) 260, 588, 869
SsiI CCGC 4 cut(s) 117, 130, 163, 296
SspMI CTAG 1 cut(s) 606
StyD4I CCNGG 2 cut(s) 65, 517
StyI CCWWGG 1 cut(s) 204
TaaI ACNGT 4 cut(s) 322, 814, 829, 940
TaiI ACGT 1 cut(s) 106
TaqI TCGA 2 cut(s) 390, 442
TasI AATT 3 cut(s) 260, 588, 869
TauI GCSGC 2 cut(s) 119, 132
TfiI GAWTC 2 cut(s) 378, 470
Tru1I TTAA 2 cut(s) 504, 791
Tru9I TTAA 2 cut(s) 504, 791
TscAI CASTG 5 cut(s) 325, 572, 834, 881, 945
TseFI GTSAC 2 cut(s) 338, 419
Tsp45I GTSAC 2 cut(s) 338, 419
TspDTI ATGAA 6 cut(s) 39, 523, 915, 921, 927, 939
TspRI CASTG 5 cut(s) 325, 572, 834, 881, 945
Van91I CCANNNNNTGG 1 cut(s) 145
VpaK11BI GGWCC 2 cut(s) 755, 863
XmiI GTMKAC 2 cut(s) 108, 395
XspI CTAG 1 cut(s) 606
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.