Rroxscaffold_2G00077220

yrdC domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000002
OG0015282
Physical Location & Seq
Reverse (-)
826959 .. 834920
7962 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_2G00077220.1

Sequence Viewer

Length: 948 bp
ATGCAACTTGCCCTTGCTTCTAGAGTTCACTGGTTTTATCAGGTTTACCTCCAAGGTACAGGGACTCTGTTCGGGCGATTACACCTGGCTTGCCTCTGTTTCTCTACAACTATACAACCCACCAACTGCATGGCATTTTTGAGGCGAGTCAAGAAAAATCTGCAAGGCTCTGGAAGAAGATTCCTTCAGGCCACAGGTTCTGTGGTGTATGTCAGCTTTATAGCCTTGATTGTTCCTTGGCAACTTGACAAGCTGGAGGAGGTGAACCAGGAAATGATCTCTATCGGAAATCTTTGGAATGATGGAAGGGTTACGTTGGTTTGTCTTTGCCGAGTCCATTCCTTGTATGAGTACTTACTAAGAAGAAGAAAGAGTGATCCGATTGTATTAGGGCCCCTCACCATCTTGTGTCACTCGTTCCATGACATTGATCGATTTACAACAGGCTTCCCTCGTGGTGATTCCAAAGGTCATGCAAATATCTTCCGAGCTGTTAAGCAATGCTTACCTGGGCCTTATACCTTCATCCTAACTGCAACCAAAGAACTACCTAAGCAGTGTATAGGGTTTGGGACAGCAATTGCCAAATACAAATCTAGGAAAAATGTGGGTGTTCGTATGCCTGCTGATGCCATCTGTCAAGCGATACTGGAGAAGATGGATACACCATTGATTTCCACAAGTTGCAAGTGCCCAAAGGAAAATGAGTGGATTTTGGATCCAGTTGCTATAGCTGATACATATGGACCAGAGGGCCTTGATTTTGTCATTGATGGTGGGTTAAGAGTGGCTGATCCATCAACTGTGGTTGACATGACAGTGTTTCCTCCCAAGATCATACGACAAGGAAAGGGACCTCAATTACACTGGATGGTGGCTGAAGATGACAATGAAGATGAATATGAAGATGACAATGAACCTGCTGAGACATGGCCTTTTAGCCAATGA
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

315

Amino Acids

35.48

Weight (kDa)

7.02

Isoelectric Point (pI)

43.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sua5_yciO_yrdC PF01300 106 - 283 1.1e-24 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
AclWI GGATC 4 cut(s) 371, 713, 726, 788
AcuI CTGAAG 2 cut(s) 170, 900
AfaI GTAC 2 cut(s) 58, 353
AjnI CCWGG 3 cut(s) 84, 267, 508
AluBI AGCT 4 cut(s) 216, 253, 491, 734
AluI AGCT 4 cut(s) 216, 253, 491, 734
Alw26I GTCTC 1 cut(s) 920
AlwI GGATC 4 cut(s) 371, 713, 726, 788
AlwNI CAGNNNCTG 1 cut(s) 200
AoxI GGCC 5 cut(s) 189, 392, 512, 754, 932
ApaI GGGCCC 1 cut(s) 396
AspS9I GGNCC 6 cut(s) 392, 393, 512, 746, 754, 854
AsuHPI GGTGA 3 cut(s) 274, 391, 470
AvaII GGWCC 2 cut(s) 746, 854
BaeGI GKGCMC 2 cut(s) 396, 695
BamHI GGATCC 1 cut(s) 718
BanII GRGCYC 1 cut(s) 396
BauI CACGAG 1 cut(s) 453
BccI CCATC 7 cut(s) 296, 410, 641, 652, 767, 805, 865
BciT130I CCWGG 3 cut(s) 86, 269, 510
BciVI GTATCC 1 cut(s) 655
BcoDI GTCTC 1 cut(s) 920
BfaI CTAG 2 cut(s) 21, 597
BfmI CTRYAG 1 cut(s) 729
BfuAI ACCTGC 1 cut(s) 928
BfuI GTATCC 1 cut(s) 655
BmcAI AGTACT 1 cut(s) 353
Bme1390I CCNGG 3 cut(s) 86, 269, 510
Bme18I GGWCC 2 cut(s) 746, 854
BmgT120I GGNCC 6 cut(s) 392, 393, 512, 746, 754, 854
BmiI GGNNCC 4 cut(s) 394, 395, 720, 855
BmrFI CCNGG 3 cut(s) 86, 269, 510
BmsI GCATC 1 cut(s) 619
BpmI CTGGAG 2 cut(s) 275, 671
Bpu10I CCTNAGC 1 cut(s) 552
Bsa29I ATCGAT 1 cut(s) 433
BsaBI GATNNNNATC 1 cut(s) 281
BsaJI CCNNGG 3 cut(s) 52, 236, 509
Bse1I ACTGG 4 cut(s) 35, 654, 722, 872
Bse3DI GCAATG 1 cut(s) 506
Bse8I GATNNNNATC 1 cut(s) 281
BseBI CCWGG 3 cut(s) 86, 269, 510
BseCI ATCGAT 1 cut(s) 433
BseDI CCNNGG 3 cut(s) 52, 236, 509
BseGI GGATG 2 cut(s) 525, 876
BseJI GATNNNNATC 1 cut(s) 281
BseMI GCAATG 1 cut(s) 506
BseMII CTCAG 1 cut(s) 915
BseNI ACTGG 4 cut(s) 35, 654, 722, 872
BseRI GAGGAG 1 cut(s) 272
BseSI GKGCMC 2 cut(s) 396, 695
BshFI GGCC 5 cut(s) 191, 394, 514, 756, 934
BshVI ATCGAT 1 cut(s) 433
BslFI GGGAC 3 cut(s) 76, 586, 867
BsmAI GTCTC 1 cut(s) 920
BsmFI GGGAC 3 cut(s) 76, 586, 867
BsnI GGCC 5 cut(s) 191, 394, 514, 756, 934
Bsp120I GGGCCC 1 cut(s) 392
Bsp1286I GDGCHC 2 cut(s) 396, 695
Bsp143I GATC 6 cut(s) 276, 376, 430, 718, 793, 834
BspANI GGCC 5 cut(s) 191, 394, 514, 756, 934
BspCNI CTCAG 1 cut(s) 916
BspDI ATCGAT 1 cut(s) 433
BspLI GGNNCC 4 cut(s) 394, 395, 720, 855
BspMI ACCTGC 1 cut(s) 928
BspPI GGATC 4 cut(s) 371, 713, 726, 788
BsrDI GCAATG 1 cut(s) 506
BsrI ACTGG 4 cut(s) 35, 654, 722, 872
BssECI CCNNGG 3 cut(s) 52, 236, 509
BssMI GATC 6 cut(s) 276, 376, 430, 718, 793, 834
BssSI CACGAG 1 cut(s) 453
BssT1I CCWWGG 2 cut(s) 52, 236
Bst2BI CACGAG 1 cut(s) 453
Bst2UI CCWGG 3 cut(s) 86, 269, 510
Bst4CI ACNGT 2 cut(s) 805, 820
BstC8I GCNNGC 2 cut(s) 91, 624
BstDEI CTNAG 3 cut(s) 359, 552, 924
BstF5I GGATG 2 cut(s) 525, 876
BstKTI GATC 6 cut(s) 279, 379, 433, 721, 796, 837
BstMAI GTCTC 1 cut(s) 920
BstMBI GATC 6 cut(s) 276, 376, 430, 718, 793, 834
BstNI CCWGG 3 cut(s) 86, 269, 510
BstSCI CCNGG 3 cut(s) 84, 267, 508
BstSFI CTRYAG 1 cut(s) 729
BstSLI GKGCMC 2 cut(s) 396, 695
BstX2I RGATCY 1 cut(s) 718
BstXI CCANNNNNNTGG 1 cut(s) 130
BstYI RGATCY 1 cut(s) 718
Bsu15I ATCGAT 1 cut(s) 433
BsuI GTATCC 1 cut(s) 655
BsuRI GGCC 5 cut(s) 191, 394, 514, 756, 934
BsuTUI ATCGAT 1 cut(s) 433
BtsCI GGATG 2 cut(s) 525, 876
BtsI GCAGTG 1 cut(s) 563
BtsIMutI CAGTG 4 cut(s) 28, 563, 825, 865
BveI ACCTGC 1 cut(s) 928
Cac8I GCNNGC 2 cut(s) 91, 624
CaiI CAGNNNCTG 1 cut(s) 200
Cfr13I GGNCC 6 cut(s) 392, 393, 512, 746, 754, 854
ClaI ATCGAT 1 cut(s) 433
Csp6I GTAC 2 cut(s) 57, 352
CviAII CATG 5 cut(s) 130, 422, 473, 814, 930
CviQI GTAC 2 cut(s) 57, 352
DdeI CTNAG 3 cut(s) 359, 552, 924
DpnI GATC 6 cut(s) 278, 378, 432, 720, 795, 836
DpnII GATC 6 cut(s) 276, 376, 430, 718, 793, 834
Eco130I CCWWGG 2 cut(s) 52, 236
Eco24I GRGCYC 1 cut(s) 396
Eco47I GGWCC 2 cut(s) 746, 854
Eco57I CTGAAG 2 cut(s) 170, 900
EcoO109I RGGNCCY 4 cut(s) 392, 393, 754, 854
EcoRII CCWGG 3 cut(s) 84, 267, 508
EcoT14I CCWWGG 2 cut(s) 52, 236
EcoT38I GRGCYC 1 cut(s) 396
ErhI CCWWGG 2 cut(s) 52, 236
FaeI CATG 5 cut(s) 133, 425, 476, 817, 933
FalI AAGNNNNNCTT 2 cut(s) 488, 520
FaqI GGGAC 3 cut(s) 76, 586, 867
FatI CATG 5 cut(s) 129, 421, 472, 813, 929
FauNDI CATATG 1 cut(s) 742
FokI GGATG 2 cut(s) 512, 883
FriOI GRGCYC 1 cut(s) 396
FspBI CTAG 2 cut(s) 21, 597
GsuI CTGGAG 2 cut(s) 275, 671
HaeIII GGCC 5 cut(s) 191, 394, 514, 756, 934
Hin1II CATG 5 cut(s) 133, 425, 476, 817, 933
HincII GTYRAC 1 cut(s) 811
HindII GTYRAC 1 cut(s) 811
HinfI GANTC 5 cut(s) 64, 147, 180, 333, 461
HphI GGTGA 3 cut(s) 274, 391, 470
Hpy166II GTNNAC 4 cut(s) 28, 46, 265, 811
Hpy188I TCNGA 3 cut(s) 287, 381, 488
Hpy188III TCNNGA 3 cut(s) 21, 151, 171
Hpy8I GTNNAC 4 cut(s) 28, 46, 265, 811
HpyAV CCTTC 3 cut(s) 194, 300, 532
HpyCH4III ACNGT 2 cut(s) 805, 820
HpyCH4IV ACGT 1 cut(s) 314
HpyCH4V TGCA 6 cut(s) 4, 129, 163, 476, 536, 687
HpyF3I CTNAG 3 cut(s) 359, 552, 924
HpySE526I ACGT 1 cut(s) 314
Hsp92II CATG 5 cut(s) 133, 425, 476, 817, 933
Kzo9I GATC 6 cut(s) 276, 376, 430, 718, 793, 834
LweI GCATC 1 cut(s) 619
MaeI CTAG 2 cut(s) 21, 597
MaeII ACGT 1 cut(s) 314
MaeIII GTNAC 2 cut(s) 310, 410
MalI GATC 6 cut(s) 278, 378, 432, 720, 795, 836
MboI GATC 6 cut(s) 276, 376, 430, 718, 793, 834
MboII GAAGA 9 cut(s) 186, 189, 375, 378, 475, 667, 893, 905, 917
MfeI CAATTG 1 cut(s) 579
MflI RGATCY 1 cut(s) 718
MhlI GDGCHC 2 cut(s) 396, 695
MluCI AATT 2 cut(s) 579, 860
MlyI GAGTC 3 cut(s) 58, 156, 342
MseI TTAA 2 cut(s) 495, 782
MslI CAYNNNNRTG 1 cut(s) 818
MspR9I CCNGG 3 cut(s) 86, 269, 510
MunI CAATTG 1 cut(s) 579
MvaI CCWGG 3 cut(s) 86, 269, 510
NdeI CATATG 1 cut(s) 742
NdeII GATC 6 cut(s) 276, 376, 430, 718, 793, 834
NlaIII CATG 5 cut(s) 133, 425, 476, 817, 933
NlaIV GGNNCC 4 cut(s) 394, 395, 720, 855
NmeAIII GCCGAG 1 cut(s) 356
NmuCI GTSAC 1 cut(s) 410
PfeI GAWTC 2 cut(s) 180, 461
PleI GAGTC 3 cut(s) 58, 155, 341
PpsI GAGTC 3 cut(s) 58, 155, 341
PpuMI RGGWCCY 1 cut(s) 854
Psp5II RGGWCCY 1 cut(s) 854
Psp6I CCWGG 3 cut(s) 84, 267, 508
PspGI CCWGG 3 cut(s) 84, 267, 508
PspN4I GGNNCC 4 cut(s) 394, 395, 720, 855
PspOMI GGGCCC 1 cut(s) 392
PspPI GGNCC 6 cut(s) 392, 393, 512, 746, 754, 854
PspPPI RGGWCCY 1 cut(s) 854
PstNI CAGNNNCTG 1 cut(s) 200
PsuI RGATCY 1 cut(s) 718
RsaI GTAC 2 cut(s) 58, 353
RsaNI GTAC 2 cut(s) 57, 352
RseI CAYNNNNRTG 1 cut(s) 818
SaqAI TTAA 2 cut(s) 495, 782
Sau3AI GATC 6 cut(s) 276, 376, 430, 718, 793, 834
Sau96I GGNCC 6 cut(s) 392, 393, 512, 746, 754, 854
ScaI AGTACT 1 cut(s) 353
SchI GAGTC 3 cut(s) 58, 156, 342
ScrFI CCNGG 3 cut(s) 86, 269, 510
SduI GDGCHC 2 cut(s) 396, 695
SfaNI GCATC 1 cut(s) 619
SfcI CTRYAG 1 cut(s) 729
SinI GGWCC 2 cut(s) 746, 854
SmiMI CAYNNNNRTG 1 cut(s) 818
Sse9I AATT 2 cut(s) 579, 860
SspMI CTAG 2 cut(s) 21, 597
StyD4I CCNGG 3 cut(s) 84, 267, 508
StyI CCWWGG 2 cut(s) 52, 236
TaaI ACNGT 2 cut(s) 805, 820
TaiI ACGT 1 cut(s) 317
TaqI TCGA 1 cut(s) 433
TasI AATT 2 cut(s) 579, 860
TatI WGTACW 1 cut(s) 351
TfiI GAWTC 2 cut(s) 180, 461
Tru1I TTAA 2 cut(s) 495, 782
Tru9I TTAA 2 cut(s) 495, 782
TscAI CASTG 4 cut(s) 35, 563, 825, 872
TseFI GTSAC 1 cut(s) 410
Tsp45I GTSAC 1 cut(s) 410
TspDTI ATGAA 5 cut(s) 514, 906, 912, 918, 930
TspRI CASTG 4 cut(s) 35, 563, 825, 872
VpaK11BI GGWCC 2 cut(s) 746, 854
XbaI TCTAGA 1 cut(s) 20
XcmI CCANNNNNNNNNTGG 2 cut(s) 127, 199
XspI CTAG 2 cut(s) 21, 597
ZrmI AGTACT 1 cut(s) 353
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.