MD09G1010800.v1.1

yrdC domain-containing protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
malus_domestica
Chr09
OG0015282
Physical Location & Seq
Reverse (-)
717039 .. 719630
2592 bp
Loading structure...
UTR
Exon/CDS
Intron
MD09G1010800.v1.1.491

Sequence Viewer

Length: 924 bp
ATGGCCGCGTACTGTTACGGTTGCCAGACGAAAGTGTATAACGGCGGCCACCTAGCTTCCTCCTCCAGCTTCCCGCGGTCTTCGGCGGCGCCTGCAACTTTCGGCCGCGTATACTTCGACTCTCCGAAACCCCGCCGTTTCCAAGTCTTAGCTCTCTCCGTTAAGCGCAGCCCCAAGCGCCTCAAATACGCCGCTCCTCGCTTCACCAAGGATGAGATGCTTTACGTTGAAGTTGATCCGTCGCAATCGGGAGCTGACAGCTGGAAATTGGAACCAGTTGTTGATCTTCTGAAACAAGGAGCTGTTGGTGTTGTTCCTACTGATACTGTGTATGCATTAGTCTGTGATTTGAGAAACAACTCGGCAATTGAACGTCTTCGCCGAATCAAGAACATCGACCCTCTAAAGCCCCTTGGCATCTTATGCCACTCCTTCCACGACATTGATACATATACGACAGGGTTTCCCCGCGGTGATGGCCAAGGTCACGCAAATTTGTTCCGATATGTTAAGCAATGCATACCCGGCCCTTATACTTTCATCTTAACTGCAACCAAACAACTACCTAAAAATTGTATAAGGTATGGGATGGCAGATGCCAAATACAAATCAAGGAAAGATGTGGGTGTTCGTATGCCTGATGATCCCATATGTCAAGCGATTCTGGAGAAGATGGGCTCACCATTGATATCCACAAGTGTCAAGTGCCCGAAAGAGAATGAGTGGCTGTTAGATCCAGTCATTATAGCTGATACATATGGACCAGAGGGCCTTGATTTTATCGTTGATGGCGGGGTAAGAGTGGCTGAACCATCAACCGTAGTTGACATGAAAGTGATCCCTCCCAAAATCATACGACAAGGAAAGGGACCTAAATTACACTGGATGGTGACAGAAGATAACAATGAATCTGCTCAGTCGTAG
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

308

Amino Acids

34.03

Weight (kDa)

9.06

Isoelectric Point (pI)

44.79

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Sua5_yciO_yrdC PF01300 96 - 288 7.1e-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)
AccB1I GGYRCC 1 cut(s) 88
AccBSI CCGCTC 1 cut(s) 194
AccI GTMKAC 1 cut(s) 111
AccII CGCG 4 cut(s) 8, 76, 108, 471
AclWI GGATC 4 cut(s) 230, 638, 728, 832
AcoI YGGCCR 4 cut(s) 3, 46, 103, 478
AcsI RAATTY 1 cut(s) 493
AcyI GRCGYC 1 cut(s) 89
AfaI GTAC 1 cut(s) 11
AgsI TTSAA 2 cut(s) 230, 371
AluBI AGCT 7 cut(s) 56, 69, 152, 254, 261, 302, 749
AluI AGCT 7 cut(s) 56, 69, 152, 254, 261, 302, 749
AlwI GGATC 4 cut(s) 230, 638, 728, 832
AoxI GGCC 6 cut(s) 3, 46, 103, 478, 526, 769
ApeKI GCWGC 1 cut(s) 168
ApoI RAATTY 1 cut(s) 493
Asp700I GAANNNNTTC 1 cut(s) 375
AspLEI GCGC 3 cut(s) 91, 168, 180
AspS9I GGNCC 4 cut(s) 527, 761, 769, 869
AsuC2I CCSGG 1 cut(s) 525
AsuHPI GGTGA 4 cut(s) 196, 485, 672, 901
AvaII GGWCC 2 cut(s) 761, 869
BaeGI GKGCMC 1 cut(s) 710
BalI TGGCCA 1 cut(s) 480
BanI GGYRCC 1 cut(s) 88
BanII GRGCYC 1 cut(s) 680
BbsI GAAGAC 2 cut(s) 72, 368
BbvI GCAGC 1 cut(s) 180
BccI CCATC 6 cut(s) 470, 583, 667, 782, 820, 880
BceAI ACGGC 2 cut(s) 58, 120
BcnI CCSGG 1 cut(s) 525
BfaI CTAG 1 cut(s) 53
BfoI RGCGCY 2 cut(s) 92, 181
BisI GCNGC 6 cut(s) 6, 46, 87, 106, 169, 192
BlsI GCNGC 6 cut(s) 7, 47, 88, 107, 170, 193
Bme1390I CCNGG 1 cut(s) 525
Bme18I GGWCC 2 cut(s) 761, 869
BmgT120I GGNCC 4 cut(s) 527, 761, 769, 869
BmiI GGNNCC 3 cut(s) 90, 273, 870
BmrFI CCNGG 1 cut(s) 525
BmsI GCATC 3 cut(s) 207, 426, 586
BpiI GAAGAC 2 cut(s) 72, 368
BpmI CTGGAG 2 cut(s) 49, 686
BpuMI CCSGG 1 cut(s) 525
BsaHI GRCGYC 1 cut(s) 89
BsaJI CCNNGG 5 cut(s) 74, 207, 412, 469, 481
Bse1I ACTGG 3 cut(s) 275, 737, 887
Bse3DI GCAATG 1 cut(s) 521
BseDI CCNNGG 5 cut(s) 74, 207, 412, 469, 481
BseGI GGATG 3 cut(s) 217, 594, 891
BseMI GCAATG 1 cut(s) 521
BseNI ACTGG 3 cut(s) 275, 737, 887
BseRI GAGGAG 2 cut(s) 52, 186
BseSI GKGCMC 1 cut(s) 710
BseX3I CGGCCG 1 cut(s) 103
BseXI GCAGC 1 cut(s) 180
Bsh1236I CGCG 4 cut(s) 8, 76, 108, 471
Bsh1285I CGRYCG 1 cut(s) 106
BshFI GGCC 6 cut(s) 5, 48, 105, 480, 528, 771
BshNI GGYRCC 1 cut(s) 88
BsiEI CGRYCG 1 cut(s) 106
BsiSI CCGG 1 cut(s) 525
BslFI GGGAC 1 cut(s) 882
BsmFI GGGAC 1 cut(s) 882
BsnI GGCC 6 cut(s) 5, 48, 105, 480, 528, 771
Bsp1286I GDGCHC 2 cut(s) 680, 710
Bsp143I GATC 5 cut(s) 235, 283, 643, 733, 837
BspANI GGCC 6 cut(s) 5, 48, 105, 480, 528, 771
BspFNI CGCG 4 cut(s) 8, 76, 108, 471
BspLI GGNNCC 3 cut(s) 90, 273, 870
BspPI GGATC 4 cut(s) 230, 638, 728, 832
BspT107I GGYRCC 1 cut(s) 88
BsrBI CCGCTC 1 cut(s) 194
BsrDI GCAATG 1 cut(s) 521
BsrI ACTGG 3 cut(s) 275, 737, 887
BssECI CCNNGG 5 cut(s) 74, 207, 412, 469, 481
BssMI GATC 5 cut(s) 235, 283, 643, 733, 837
BssNAI GTATAC 1 cut(s) 112
BssNI GRCGYC 1 cut(s) 89
BssT1I CCWWGG 3 cut(s) 207, 412, 481
Bst1107I GTATAC 1 cut(s) 112
Bst4CI ACNGT 4 cut(s) 14, 20, 328, 820
BstACI GRCGYC 1 cut(s) 89
BstAPI GCANNNNNTGC 1 cut(s) 423
BstC8I GCNNGC 1 cut(s) 93
BstDEI CTNAG 2 cut(s) 148, 915
BstDSI CCRYGG 2 cut(s) 74, 469
BstF5I GGATG 3 cut(s) 217, 594, 891
BstFNI CGCG 4 cut(s) 8, 76, 108, 471
BstH2I RGCGCY 2 cut(s) 92, 181
BstHHI GCGC 3 cut(s) 91, 168, 180
BstKTI GATC 5 cut(s) 238, 286, 646, 736, 840
BstMBI GATC 5 cut(s) 235, 283, 643, 733, 837
BstMCI CGRYCG 1 cut(s) 106
BstMWI GCNNNNNNNGC 5 cut(s) 92, 177, 423, 477, 525
BstSCI CCNGG 1 cut(s) 523
BstSLI GKGCMC 1 cut(s) 710
BstUI CGCG 4 cut(s) 8, 76, 108, 471
BstV1I GCAGC 1 cut(s) 180
BstV2I GAAGAC 2 cut(s) 72, 368
BstX2I RGATCY 1 cut(s) 733
BstYI RGATCY 1 cut(s) 733
BstZ17I GTATAC 1 cut(s) 112
BstZI CGGCCG 1 cut(s) 103
BsuRI GGCC 6 cut(s) 5, 48, 105, 480, 528, 771
BtgI CCRYGG 2 cut(s) 74, 469
BtsCI GGATG 3 cut(s) 217, 594, 891
BtsIMutI CAGTG 1 cut(s) 880
Cac8I GCNNGC 1 cut(s) 93
CfoI GCGC 3 cut(s) 91, 168, 180
Cfr13I GGNCC 4 cut(s) 527, 761, 769, 869
Cfr42I CCGCGG 2 cut(s) 77, 472
Csp6I GTAC 1 cut(s) 10
CviAII CATG 1 cut(s) 829
CviQI GTAC 1 cut(s) 10
DdeI CTNAG 2 cut(s) 148, 915
DinI GGCGCC 1 cut(s) 90
DpnI GATC 5 cut(s) 237, 285, 645, 735, 839
DpnII GATC 5 cut(s) 235, 283, 643, 733, 837
EaeI YGGCCR 4 cut(s) 3, 46, 103, 478
EagI CGGCCG 1 cut(s) 103
EclXI CGGCCG 1 cut(s) 103
Eco130I CCWWGG 3 cut(s) 207, 412, 481
Eco24I GRGCYC 1 cut(s) 680
Eco32I GATATC 1 cut(s) 690
Eco47I GGWCC 2 cut(s) 761, 869
Eco52I CGGCCG 1 cut(s) 103
EcoO109I RGGNCCY 2 cut(s) 769, 869
EcoRV GATATC 1 cut(s) 690
EcoT14I CCWWGG 3 cut(s) 207, 412, 481
EcoT22I ATGCAT 2 cut(s) 337, 521
EcoT38I GRGCYC 1 cut(s) 680
EgeI GGCGCC 1 cut(s) 90
EheI GGCGCC 1 cut(s) 90
ErhI CCWWGG 3 cut(s) 207, 412, 481
FaeI CATG 1 cut(s) 832
FaqI GGGAC 1 cut(s) 882
FatI CATG 1 cut(s) 828
FauI CCCGC 4 cut(s) 81, 140, 476, 785
FauNDI CATATG 2 cut(s) 650, 757
FblI GTMKAC 1 cut(s) 111
Fnu4HI GCNGC 6 cut(s) 6, 46, 87, 106, 169, 192
FokI GGATG 3 cut(s) 224, 601, 898
FriOI GRGCYC 1 cut(s) 680
Fsp4HI GCNGC 6 cut(s) 6, 46, 87, 106, 169, 192
FspBI CTAG 1 cut(s) 53
GlaI GCGC 3 cut(s) 90, 167, 179
GluI GCNGC 6 cut(s) 6, 46, 87, 106, 169, 192
GsuI CTGGAG 2 cut(s) 49, 686
HaeII RGCGCY 2 cut(s) 92, 181
HaeIII GGCC 6 cut(s) 5, 48, 105, 480, 528, 771
HapII CCGG 1 cut(s) 525
HhaI GCGC 3 cut(s) 91, 168, 180
Hin1I GRCGYC 1 cut(s) 89
Hin1II CATG 1 cut(s) 832
Hin6I GCGC 3 cut(s) 89, 166, 178
HinP1I GCGC 3 cut(s) 89, 166, 178
HincII GTYRAC 1 cut(s) 826
HindII GTYRAC 1 cut(s) 826
HinfI GANTC 4 cut(s) 119, 384, 661, 908
HpaII CCGG 1 cut(s) 525
HphI GGTGA 4 cut(s) 196, 485, 672, 901
Hpy166II GTNNAC 2 cut(s) 112, 826
Hpy188I TCNGA 3 cut(s) 126, 291, 503
Hpy188III TCNNGA 3 cut(s) 249, 388, 665
Hpy8I GTNNAC 2 cut(s) 112, 826
Hpy99I CGWCG 1 cut(s) 244
HpyAV CCTTC 1 cut(s) 442
HpyCH4III ACNGT 4 cut(s) 14, 20, 328, 820
HpyCH4IV ACGT 2 cut(s) 225, 373
HpyCH4V TGCA 4 cut(s) 95, 335, 519, 551
HpyF10VI GCNNNNNNNGC 5 cut(s) 92, 177, 423, 477, 525
HpyF3I CTNAG 2 cut(s) 148, 915
HpySE526I ACGT 2 cut(s) 225, 373
Hsp92I GRCGYC 1 cut(s) 89
Hsp92II CATG 1 cut(s) 832
HspAI GCGC 3 cut(s) 89, 166, 178
KasI GGCGCC 1 cut(s) 88
KspI CCGCGG 2 cut(s) 77, 472
Kzo9I GATC 5 cut(s) 235, 283, 643, 733, 837
LmnI GCTCC 3 cut(s) 199, 251, 299
Lsp1109I GCAGC 1 cut(s) 180
LweI GCATC 3 cut(s) 207, 426, 586
MaeI CTAG 1 cut(s) 53
MaeII ACGT 2 cut(s) 225, 373
MaeIII GTNAC 3 cut(s) 14, 485, 889
MalI GATC 5 cut(s) 237, 285, 645, 735, 839
MbiI CCGCTC 1 cut(s) 194
MboI GATC 5 cut(s) 235, 283, 643, 733, 837
MboII GAAGA 5 cut(s) 72, 278, 368, 682, 908
MfeI CAATTG 1 cut(s) 366
MflI RGATCY 1 cut(s) 733
MhlI GDGCHC 2 cut(s) 680, 710
MlsI TGGCCA 1 cut(s) 480
MluCI AATT 5 cut(s) 266, 366, 493, 571, 875
MluNI TGGCCA 1 cut(s) 480
Mly113I GGCGCC 1 cut(s) 89
MlyI GAGTC 1 cut(s) 113
MnlI CCTC 7 cut(s) 70, 73, 191, 207, 411, 760, 852
Mox20I TGGCCA 1 cut(s) 480
Mph1103I ATGCAT 2 cut(s) 337, 521
MroXI GAANNNNTTC 1 cut(s) 375
MscI TGGCCA 1 cut(s) 480
MseI TTAA 3 cut(s) 162, 510, 545
MslI CAYNNNNRTG 1 cut(s) 833
Msp20I TGGCCA 1 cut(s) 480
MspA1I CMGCKG 3 cut(s) 76, 261, 471
MspI CCGG 1 cut(s) 525
MspR9I CCNGG 1 cut(s) 525
MunI CAATTG 1 cut(s) 366
MvnI CGCG 4 cut(s) 8, 76, 108, 471
MwoI GCNNNNNNNGC 5 cut(s) 92, 177, 423, 477, 525
NarI GGCGCC 1 cut(s) 89
NciI CCSGG 1 cut(s) 525
NdeI CATATG 2 cut(s) 650, 757
NdeII GATC 5 cut(s) 235, 283, 643, 733, 837
NlaIII CATG 1 cut(s) 832
NlaIV GGNNCC 3 cut(s) 90, 273, 870
NmeAIII GCCGAG 1 cut(s) 341
NmuCI GTSAC 2 cut(s) 485, 889
NsiI ATGCAT 2 cut(s) 337, 521
PcsI WCGNNNNNNNCGW 1 cut(s) 379
PdmI GAANNNNTTC 1 cut(s) 375
PfeI GAWTC 3 cut(s) 384, 661, 908
PkrI GCNGC 6 cut(s) 7, 47, 88, 107, 170, 193
PleI GAGTC 1 cut(s) 113
PluTI GGCGCC 1 cut(s) 92
PpsI GAGTC 1 cut(s) 113
PpuMI RGGWCCY 1 cut(s) 869
Psp5II RGGWCCY 1 cut(s) 869
PspN4I GGNNCC 3 cut(s) 90, 273, 870
PspPI GGNCC 4 cut(s) 527, 761, 769, 869
PspPPI RGGWCCY 1 cut(s) 869
PsuI RGATCY 1 cut(s) 733
PvuII CAGCTG 1 cut(s) 261
RsaI GTAC 1 cut(s) 11
RsaNI GTAC 1 cut(s) 10
RseI CAYNNNNRTG 1 cut(s) 833
SacII CCGCGG 2 cut(s) 77, 472
SaqAI TTAA 3 cut(s) 162, 510, 545
SatI GCNGC 6 cut(s) 6, 46, 87, 106, 169, 192
Sau3AI GATC 5 cut(s) 235, 283, 643, 733, 837
Sau96I GGNCC 4 cut(s) 527, 761, 769, 869
SchI GAGTC 1 cut(s) 113
ScrFI CCNGG 1 cut(s) 525
SduI GDGCHC 2 cut(s) 680, 710
SfaNI GCATC 3 cut(s) 207, 426, 586
SfoI GGCGCC 1 cut(s) 90
Sfr303I CCGCGG 2 cut(s) 77, 472
SgrBI CCGCGG 2 cut(s) 77, 472
SinI GGWCC 2 cut(s) 761, 869
SmiMI CAYNNNNRTG 1 cut(s) 833
Sse9I AATT 5 cut(s) 266, 366, 493, 571, 875
SspDI GGCGCC 1 cut(s) 88
SspMI CTAG 1 cut(s) 53
StyD4I CCNGG 1 cut(s) 523
StyI CCWWGG 3 cut(s) 207, 412, 481
TaaI ACNGT 4 cut(s) 14, 20, 328, 820
TaiI ACGT 2 cut(s) 228, 376
TaqI TCGA 2 cut(s) 117, 396
TasI AATT 5 cut(s) 266, 366, 493, 571, 875
TauI GCSGC 5 cut(s) 8, 48, 89, 108, 194
TfiI GAWTC 3 cut(s) 384, 661, 908
Tru1I TTAA 3 cut(s) 162, 510, 545
Tru9I TTAA 3 cut(s) 162, 510, 545
TscAI CASTG 1 cut(s) 887
TseFI GTSAC 2 cut(s) 485, 889
TseI GCWGC 1 cut(s) 168
Tsp45I GTSAC 2 cut(s) 485, 889
TspDTI ATGAA 3 cut(s) 529, 845, 921
TspGWI ACGGA 2 cut(s) 148, 228
TspRI CASTG 1 cut(s) 887
VpaK11BI GGWCC 2 cut(s) 761, 869
XapI RAATTY 1 cut(s) 493
XmiI GTMKAC 1 cut(s) 111
XmnI GAANNNNTTC 1 cut(s) 375
XspI CTAG 1 cut(s) 53
Zsp2I ATGCAT 2 cut(s) 337, 521
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.