Rorug05G0086200

Ataxin 2 SM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000005
OG0001651
Physical Location & Seq
Forward (+)
7431213 .. 7432938
1726 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug05G0086200.1

Sequence Viewer

Length: 618 bp
ATGAATGTCAGCACAGACCAGTCTGCTCTTCTTGCTCTCAAAGCCCATATCACTAGCGACCCTCAAAACATGATCTTCACCAACTGGTCCACCGCCACCCAACGCCACCTTAGAGTTGCGGTCTTGAACCTTTCTTACTTTGGTCTCACAGGTACTATTCCTTCAGAACTTGGCAACCTATCATTTCTTGTCGAGCTGCACTTGAGAAATAACAGCTTCCATGGTACTTTGCCTAAGGAATTGGCTCGTCTGCGCCGGTTGAAGTTGATTAGCTTGGTATGGAACAACTTTATGGGAGCCATTCCATCATGGTTTGGGTCCTTGTTCAAACTTGAAAGCTTCAATTTGTTTGGTAATCGGTTTTCCGGTCCCATTCCAGCTGCTGTCTTCAACTTATCTTCATTGCAAGTACTTGATCTAAGCTATAATCAGCTATCAGGAAGAATACCAAGAGAAATCGGAAACTTAACTTTACTGTGGGTGATATACTTTGATGGTAATACATTCACAGAAATTCCCAACGAGATTGGCTCTTTGAATAAGTTGGAGTACTTGTTTGTGCAAGAAAAGGCTCTAACATGCACTATTCCTGTGACTTCTTCAACATGTTTTCTTTGA
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
PAM2 SM-ATX

Protein Analysis

205

Amino Acids

23.0

Weight (kDa)

8.64

Isoelectric Point (pI)

30.22

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
LRR_14 PF23598 41 - 116 2.8e-07 Leucine-rich repeat region
LRR_14 PF23598 107 - 186 1.9e-08 Leucine-rich repeat region
LRR_8 PF13855 111 - 167 1.4e-06 Leucine rich repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 2 cut(s) 93, 119
AcsI RAATTY 1 cut(s) 513
AcuI CTGAAG 1 cut(s) 147
AfaI GTAC 4 cut(s) 154, 226, 411, 551
AflIII ACRYGT 1 cut(s) 605
AgsI TTSAA 8 cut(s) 127, 262, 328, 335, 343, 391, 538, 603
AluBI AGCT 7 cut(s) 196, 216, 273, 339, 380, 423, 433
AluI AGCT 7 cut(s) 196, 216, 273, 339, 380, 423, 433
Alw26I GTCTC 1 cut(s) 149
AlwNI CAGNNNCTG 1 cut(s) 383
ApeKI GCWGC 2 cut(s) 196, 380
ApoI RAATTY 1 cut(s) 513
AspLEI GCGC 1 cut(s) 255
AspS9I GGNCC 3 cut(s) 87, 318, 368
AsuHPI GGTGA 2 cut(s) 70, 493
AvaII GGWCC 3 cut(s) 87, 318, 368
AxyI CCTNAGG 1 cut(s) 234
BarI GAAGNNNNNNTAC 2 cut(s) 145, 177
BbsI GAAGAC 1 cut(s) 379
BbvI GCAGC 2 cut(s) 183, 367
BccI CCATC 2 cut(s) 313, 488
BcoDI GTCTC 1 cut(s) 149
BfaI CTAG 1 cut(s) 54
BisI GCNGC 2 cut(s) 197, 381
BlsI GCNGC 2 cut(s) 198, 382
BmcAI AGTACT 2 cut(s) 411, 551
Bme18I GGWCC 3 cut(s) 87, 318, 368
BmgT120I GGNCC 3 cut(s) 87, 318, 368
BmiI GGNNCC 3 cut(s) 298, 319, 370
BpiI GAAGAC 1 cut(s) 379
BplI GAGNNNNNCTC 2 cut(s) 515, 547
BpuEI CTTGAG 1 cut(s) 223
BsaI GGTCTC 1 cut(s) 149
BsaJI CCNNGG 1 cut(s) 220
BsaWI WCCGGW 1 cut(s) 365
BsaXI ACNNNNNCTCC 2 cut(s) 539, 569
Bse118I RCCGGY 1 cut(s) 255
Bse1I ACTGG 2 cut(s) 19, 89
Bse21I CCTNAGG 1 cut(s) 234
Bse3DI GCAATG 1 cut(s) 401
BseDI CCNNGG 1 cut(s) 220
BseMI GCAATG 1 cut(s) 401
BseNI ACTGG 2 cut(s) 19, 89
BseXI GCAGC 2 cut(s) 183, 367
BsgI GTGCAG 1 cut(s) 182
BsiSI CCGG 2 cut(s) 256, 366
BslFI GGGAC 1 cut(s) 354
BsmAI GTCTC 1 cut(s) 149
BsmFI GGGAC 1 cut(s) 354
Bso31I GGTCTC 1 cut(s) 149
Bsp143I GATC 2 cut(s) 72, 415
Bsp19I CCATGG 1 cut(s) 220
BspACI CCGC 2 cut(s) 93, 119
BspLI GGNNCC 3 cut(s) 298, 319, 370
BspQI GCTCTTC 1 cut(s) 33
BspTNI GGTCTC 1 cut(s) 149
BsrDI GCAATG 1 cut(s) 401
BsrFI RCCGGY 1 cut(s) 255
BsrI ACTGG 2 cut(s) 19, 89
BssAI RCCGGY 1 cut(s) 255
BssECI CCNNGG 1 cut(s) 220
BssMI GATC 2 cut(s) 72, 415
BssT1I CCWWGG 1 cut(s) 220
Bst4CI ACNGT 1 cut(s) 477
Bst6I CTCTTC 1 cut(s) 33
BstDEI CTNAG 3 cut(s) 110, 234, 419
BstDSI CCRYGG 1 cut(s) 220
BstHHI GCGC 1 cut(s) 255
BstKTI GATC 2 cut(s) 75, 418
BstMAI GTCTC 1 cut(s) 149
BstMBI GATC 2 cut(s) 72, 415
BstMWI GCNNNNNNNGC 2 cut(s) 32, 41
BstNSI RCATGY 2 cut(s) 582, 609
BstV1I GCAGC 2 cut(s) 183, 367
BstV2I GAAGAC 1 cut(s) 379
Bsu36I CCTNAGG 1 cut(s) 234
BtgI CCRYGG 1 cut(s) 220
CaiI CAGNNNCTG 1 cut(s) 383
CfoI GCGC 1 cut(s) 255
Cfr10I RCCGGY 1 cut(s) 255
Cfr13I GGNCC 3 cut(s) 87, 318, 368
Csp6I GTAC 4 cut(s) 153, 225, 410, 550
CviAII CATG 5 cut(s) 70, 221, 309, 579, 606
CviQI GTAC 4 cut(s) 153, 225, 410, 550
DdeI CTNAG 3 cut(s) 110, 234, 419
DpnI GATC 2 cut(s) 74, 417
DpnII GATC 2 cut(s) 72, 415
Eam1104I CTCTTC 1 cut(s) 33
EarI CTCTTC 1 cut(s) 33
Eco130I CCWWGG 1 cut(s) 220
Eco31I GGTCTC 1 cut(s) 149
Eco47I GGWCC 3 cut(s) 87, 318, 368
Eco57I CTGAAG 1 cut(s) 147
Eco81I CCTNAGG 1 cut(s) 234
EcoO109I RGGNCCY 1 cut(s) 318
EcoT14I CCWWGG 1 cut(s) 220
ErhI CCWWGG 1 cut(s) 220
FaeI CATG 5 cut(s) 73, 224, 312, 582, 609
FaqI GGGAC 1 cut(s) 354
FatI CATG 5 cut(s) 69, 220, 308, 578, 605
Fnu4HI GCNGC 2 cut(s) 197, 381
Fsp4HI GCNGC 2 cut(s) 197, 381
FspBI CTAG 1 cut(s) 54
GlaI GCGC 1 cut(s) 254
GluI GCNGC 2 cut(s) 197, 381
HapII CCGG 2 cut(s) 256, 366
HhaI GCGC 1 cut(s) 255
Hin1II CATG 5 cut(s) 73, 224, 312, 582, 609
Hin6I GCGC 1 cut(s) 253
HinP1I GCGC 1 cut(s) 253
HindIII AAGCTT 1 cut(s) 337
HpaII CCGG 2 cut(s) 256, 366
HphI GGTGA 2 cut(s) 70, 493
Hpy166II GTNNAC 1 cut(s) 90
Hpy188I TCNGA 2 cut(s) 166, 461
Hpy188III TCNNGA 2 cut(s) 124, 438
Hpy8I GTNNAC 1 cut(s) 90
HpyAV CCTTC 1 cut(s) 171
HpyCH4III ACNGT 1 cut(s) 477
HpyCH4V TGCA 4 cut(s) 199, 406, 562, 582
HpyF10VI GCNNNNNNNGC 2 cut(s) 32, 41
HpyF3I CTNAG 3 cut(s) 110, 234, 419
Hsp92II CATG 5 cut(s) 73, 224, 312, 582, 609
HspAI GCGC 1 cut(s) 253
Kzo9I GATC 2 cut(s) 72, 415
LguI GCTCTTC 1 cut(s) 33
LmnI GCTCC 1 cut(s) 296
LpnPI CCDG 8 cut(s) 32, 70, 135, 269, 379, 390, 423, 603
Lsp1109I GCAGC 2 cut(s) 183, 367
MaeI CTAG 1 cut(s) 54
MaeIII GTNAC 1 cut(s) 592
MalI GATC 2 cut(s) 74, 417
MboI GATC 2 cut(s) 72, 415
MboII GAAGA 6 cut(s) 20, 67, 379, 390, 453, 591
MluCI AATT 3 cut(s) 239, 343, 513
MmeI TCCRAC 1 cut(s) 525
MnlI CCTC 1 cut(s) 72
MseI TTAA 1 cut(s) 467
MspA1I CMGCKG 1 cut(s) 380
MspI CCGG 2 cut(s) 256, 366
MwoI GCNNNNNNNGC 2 cut(s) 32, 41
NcoI CCATGG 1 cut(s) 220
NdeII GATC 2 cut(s) 72, 415
NlaIII CATG 5 cut(s) 73, 224, 312, 582, 609
NlaIV GGNNCC 3 cut(s) 298, 319, 370
NmuCI GTSAC 1 cut(s) 592
NspI RCATGY 2 cut(s) 582, 609
PciI ACATGT 1 cut(s) 605
PciSI GCTCTTC 1 cut(s) 33
PkrI GCNGC 2 cut(s) 198, 382
PpuMI RGGWCCY 1 cut(s) 318
PscI ACATGT 1 cut(s) 605
Psp5II RGGWCCY 1 cut(s) 318
PspN4I GGNNCC 3 cut(s) 298, 319, 370
PspPI GGNCC 3 cut(s) 87, 318, 368
PspPPI RGGWCCY 1 cut(s) 318
PsrI GAACNNNNNNTAC 2 cut(s) 119, 151
PstNI CAGNNNCTG 1 cut(s) 383
PvuII CAGCTG 1 cut(s) 380
RsaI GTAC 4 cut(s) 154, 226, 411, 551
RsaNI GTAC 4 cut(s) 153, 225, 410, 550
SapI GCTCTTC 1 cut(s) 33
SaqAI TTAA 1 cut(s) 467
SatI GCNGC 2 cut(s) 197, 381
Sau3AI GATC 2 cut(s) 72, 415
Sau96I GGNCC 3 cut(s) 87, 318, 368
ScaI AGTACT 2 cut(s) 411, 551
SinI GGWCC 3 cut(s) 87, 318, 368
SmlI CTYRAG 1 cut(s) 202
SmoI CTYRAG 1 cut(s) 202
Sse9I AATT 3 cut(s) 239, 343, 513
SsiI CCGC 2 cut(s) 93, 119
SspMI CTAG 1 cut(s) 54
StyI CCWWGG 1 cut(s) 220
TaaI ACNGT 1 cut(s) 477
TaqI TCGA 1 cut(s) 192
TasI AATT 3 cut(s) 239, 343, 513
TatI WGTACW 2 cut(s) 409, 549
Tru1I TTAA 1 cut(s) 467
Tru9I TTAA 1 cut(s) 467
TseFI GTSAC 1 cut(s) 592
TseI GCWGC 2 cut(s) 196, 380
Tsp45I GTSAC 1 cut(s) 592
TspDTI ATGAA 2 cut(s) 17, 390
VpaK11BI GGWCC 3 cut(s) 87, 318, 368
XapI RAATTY 1 cut(s) 513
XceI RCATGY 2 cut(s) 582, 609
XspI CTAG 1 cut(s) 54
ZrmI AGTACT 2 cut(s) 411, 551
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.