Rroxscaffold_1G00041860

Ataxin 2 SM domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000001
OG0001651
Physical Location & Seq
Reverse (-)
59823155 .. 59829668
6514 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_1G00041860.1

Sequence Viewer

Length: 1557 bp
ATGGGGTGCAGAAACAGAGAGCTCACAGAAGATGATGCCGTTTCTTCTTCTCTTTCTTCATTAAGTGAGGCCTTGCTGTTTGCGACCATGTGCATCATTGGTCTCCCAGTCGATGTTCACGTCAAGGACGGCTCTGTCTACTCCGGAATCTTCCACACTGCTTCTGTGGAAAATGAATACGGCATTGTTTTGAAGAAAGCAAGGATGACTAAAAAGGGAAAATCTGATGCAAATGTAGCAAATGGGGAGTTGATAGATACTCTTGTGATTCTTTCTGGTGATCTTGTCCAAGTTGTTACAAAGGGAGTTTTACTTCCAGCTGATGGTGTTGCTGGAAATATGTCTGGTGACAGAACTGAAGCTGTTACGGGTACTGTTTCTTCCGATGAGTGTTCAAAGAATGGTGCGAAGAAGTCAAGTGAGTCTGCCATAAATAAGAAGAAGGGTGGAAGGGTGCTAATGCAAAATGGGAATGGCTTTCATGGTGTTACACCCACAAGGGCTGTCAAGGAACATGGAGGGAGGAAAATGCCACTGAATCATATTGAGAATGCCTCAGAACTTGAAAATAAGAGAAGTGATGAGATTAGAGAATCCGCTGGTGCCAGCATGAAGAGGAGACAGGTGGATGATGGGTCTCAAGGGAAGCAGGATGATTTCAACCAGAAATTAGAGGTTTATAGGAAAGAAAGTGCTGACAAAGTTCAGGATACAAAGATGACATCCAAGCTCTCCCCTTTCGGATTATCTTGTGATCCTTCTACTGTAATAGTTCAACAAGACATTCAGTGCTGTGAAAGGACAACTTCAGAATACACTTCTTCCAGTTCAAATGTTGTTTCTTCAGGTTCCTCAACTTTGTTGAATCCAGCTGCTAATGTCTCAAGTCGTAATTCAGAAACAACATCAACTGAAATGATCCCTCATGGTTCAGAGTTAAATAAAAGTGGCAAGGAATTTAAGCTCAACCCAGGAGCAAAAGTATTCTCGCCGTCTTTTACAAAGCCCACCTCTCCTGCAGTGCCAACAGTGGCAAGCATGGGTTTTATGCCAACCAACTGCCCCGTGGTACCTGGTCCTGCCGTCCAGCCAGAAGTTGGATCAAATCCTTTCGCATCCCGTACATCTGTGCCTGTTAAGGTTCTCCCATACAATAATTTCACAACTGGGAATGGTAGCAGTGCTTCTCAATTTTCACAACCTATTGTTGGACACATGAGCAGTAGGGCACAGACAGTTAGGTATGCTGGTCAGTATCCTGTTCAGGCTGGACCGACCTATGTGCATCCAAATACTCAAGCTGTTATGGTAGGACGATTTGGACAGCTTGTCTATTTGCATCCAGTTTCTCAAGATTTGGGTCAGGGTACACCAGCCATCTCACCACTATCTGCACGTCCTATGTTGACTCCACATCAGGTCCAGTTTCCGAAGCACCAAGGAACTGCAGGCCAAGCATTGCAGCTGTGTGTGCCTCCGCAGTTCATGGCTACTGGACAGCAGCCTTTTCCCATTGCCAAGTCGCATCCGATTTTTGCAACCTCCCTTCCGTTCTAA
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

518

Amino Acids

55.06

Weight (kDa)

8.75

Isoelectric Point (pI)

41.99

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
SM-ATX PF14438 23 - 100 1.8e-25 Ataxin 2 SM domain
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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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 134
Acc65I GGTACC 1 cut(s) 1069
AccB1I GGYRCC 2 cut(s) 602, 1069
AccB7I CCANNNNNTGG 2 cut(s) 323, 1097
AccI GTMKAC 1 cut(s) 138
AccIII TCCGGA 1 cut(s) 143
AciI CCGC 2 cut(s) 597, 1478
AclWI GGATC 3 cut(s) 749, 913, 1108
AcsI RAATTY 1 cut(s) 956
AcuI CTGAAG 3 cut(s) 378, 792, 828
AfaI GTAC 4 cut(s) 373, 1071, 1123, 1369
AfiI CCNNNNNNNGG 3 cut(s) 323, 1097, 1208
AgsI TTSAA 7 cut(s) 193, 396, 566, 661, 776, 831, 865
AhdI GACNNNNNGTC 1 cut(s) 1328
AjiI CACGTC 2 cut(s) 121, 1397
AjnI CCWGG 2 cut(s) 970, 1072
AluBI AGCT 9 cut(s) 22, 320, 362, 730, 872, 964, 1301, 1327, 1465
AluI AGCT 9 cut(s) 22, 320, 362, 730, 872, 964, 1301, 1327, 1465
Alw21I GWGCWC 1 cut(s) 24
Alw26I GTCTC 4 cut(s) 107, 613, 642, 886
AlwI GGATC 3 cut(s) 749, 913, 1108
Aor13HI TCCGGA 1 cut(s) 143
AoxI GGCC 2 cut(s) 69, 1450
ApeKI GCWGC 3 cut(s) 872, 1462, 1501
ApoI RAATTY 1 cut(s) 956
Asp718I GGTACC 1 cut(s) 1069
AspS9I GGNCC 3 cut(s) 1076, 1271, 1420
AsuHPI GGTGA 3 cut(s) 290, 359, 1374
AvaII GGWCC 3 cut(s) 1076, 1271, 1420
BaeGI GKGCMC 1 cut(s) 1231
BaeI ACNNNNGTAYC 2 cut(s) 249, 282
BanI GGYRCC 2 cut(s) 602, 1069
BanII GRGCYC 1 cut(s) 24
BarI GAAGNNNNNNTAC 4 cut(s) 364, 396, 1168, 1200
Bbv12I GWGCWC 1 cut(s) 24
BbvI GCAGC 3 cut(s) 859, 1474, 1513
BccI CCATC 3 cut(s) 317, 626, 1385
BceAI ACGGC 5 cut(s) 23, 145, 196, 976, 1067
BcgI CGANNNNNNTGC 2 cut(s) 1264, 1298
BciT130I CCWGG 2 cut(s) 972, 1074
BciVI GTATCC 2 cut(s) 703, 1266
BcoDI GTCTC 4 cut(s) 107, 613, 642, 886
BfmI CTRYAG 2 cut(s) 1017, 1446
BfuI GTATCC 2 cut(s) 703, 1266
BisI GCNGC 3 cut(s) 873, 1463, 1502
BlsI GCNGC 3 cut(s) 874, 1464, 1503
Bme1390I CCNGG 2 cut(s) 972, 1074
Bme18I GGWCC 3 cut(s) 1076, 1271, 1420
BmeRI GACNNNNNGTC 1 cut(s) 1328
BmgBI CACGTC 2 cut(s) 121, 1397
BmgT120I GGNCC 3 cut(s) 1076, 1271, 1420
BmiI GGNNCC 3 cut(s) 604, 850, 1071
BmrFI CCNGG 2 cut(s) 972, 1074
BmrI ACTGGG 2 cut(s) 101, 1176
BmsI GCATC 7 cut(s) 25, 102, 217, 1124, 1294, 1348, 1534
BmuI ACTGGG 2 cut(s) 101, 1176
BplI GAGNNNNNCTC 2 cut(s) 539, 571
BpuEI CTTGAG 4 cut(s) 624, 868, 1281, 1335
BsaI GGTCTC 2 cut(s) 107, 642
BsaJI CCNNGG 3 cut(s) 970, 1065, 1438
BsaWI WCCGGW 1 cut(s) 143
BsaXI ACNNNNNCTCC 2 cut(s) 966, 996
Bsc4I CCNNNNNNNGG 3 cut(s) 323, 1097, 1208
Bse1I ACTGG 6 cut(s) 107, 825, 1171, 1343, 1423, 1498
Bse3DI GCAATG 2 cut(s) 1457, 1512
BseAI TCCGGA 1 cut(s) 143
BseBI CCWGG 2 cut(s) 972, 1074
BseDI CCNNGG 3 cut(s) 970, 1065, 1438
BseGI GGATG 8 cut(s) 210, 634, 658, 722, 1115, 1285, 1339, 1525
BseLI CCNNNNNNNGG 3 cut(s) 323, 1097, 1208
BseMI GCAATG 2 cut(s) 1457, 1512
BseMII CTCAG 1 cut(s) 570
BseNI ACTGG 6 cut(s) 107, 825, 1171, 1343, 1423, 1498
BseRI GAGGAG 1 cut(s) 631
BseSI GKGCMC 1 cut(s) 1231
BseXI GCAGC 3 cut(s) 859, 1474, 1513
BsgI GTGCAG 2 cut(s) 28, 1377
BshFI GGCC 2 cut(s) 71, 1452
BshNI GGYRCC 2 cut(s) 602, 1069
BsiHKAI GWGCWC 1 cut(s) 24
BsiSI CCGG 1 cut(s) 144
BslI CCNNNNNNNGG 3 cut(s) 323, 1097, 1208
BsmAI GTCTC 4 cut(s) 107, 613, 642, 886
BsmI GAATGC 1 cut(s) 556
BsnI GGCC 2 cut(s) 71, 1452
Bso31I GGTCTC 2 cut(s) 107, 642
Bsp1286I GDGCHC 2 cut(s) 24, 1231
Bsp13I TCCGGA 1 cut(s) 143
Bsp143I GATC 4 cut(s) 280, 754, 918, 1100
BspACI CCGC 2 cut(s) 597, 1478
BspANI GGCC 2 cut(s) 71, 1452
BspCNI CTCAG 1 cut(s) 569
BspEI TCCGGA 1 cut(s) 143
BspLI GGNNCC 3 cut(s) 604, 850, 1071
BspMAI CTGCAG 2 cut(s) 1021, 1450
BspPI GGATC 3 cut(s) 749, 913, 1108
BspT107I GGYRCC 2 cut(s) 602, 1069
BspTNI GGTCTC 2 cut(s) 107, 642
BsrDI GCAATG 2 cut(s) 1457, 1512
BsrI ACTGG 6 cut(s) 107, 825, 1171, 1343, 1423, 1498
BssECI CCNNGG 3 cut(s) 970, 1065, 1438
BssMI GATC 4 cut(s) 280, 754, 918, 1100
BssT1I CCWWGG 1 cut(s) 1438
Bst2UI CCWGG 2 cut(s) 972, 1074
Bst4CI ACNGT 4 cut(s) 376, 766, 1030, 1237
Bst6I CTCTTC 1 cut(s) 608
BstC8I GCNNGC 3 cut(s) 607, 1036, 1450
BstDEI CTNAG 1 cut(s) 556
BstDSI CCRYGG 1 cut(s) 1065
BstF5I GGATG 8 cut(s) 210, 634, 658, 722, 1115, 1285, 1339, 1525
BstKTI GATC 4 cut(s) 283, 757, 921, 1103
BstMAI GTCTC 4 cut(s) 107, 613, 642, 886
BstMBI GATC 4 cut(s) 280, 754, 918, 1100
BstMWI GCNNNNNNNGC 3 cut(s) 236, 1454, 1471
BstNI CCWGG 2 cut(s) 972, 1074
BstSCI CCNGG 2 cut(s) 970, 1072
BstSFI CTRYAG 2 cut(s) 1017, 1446
BstSLI GKGCMC 1 cut(s) 1231
BstV1I GCAGC 3 cut(s) 859, 1474, 1513
BsuI GTATCC 2 cut(s) 703, 1266
BsuRI GGCC 2 cut(s) 71, 1452
BtgI CCRYGG 1 cut(s) 1065
BtrI CACGTC 2 cut(s) 121, 1397
BtsCI GGATG 8 cut(s) 210, 634, 658, 722, 1115, 1285, 1339, 1525
BtsI GCAGTG 3 cut(s) 156, 1026, 1186
BtsIMutI CAGTG 6 cut(s) 156, 533, 794, 1026, 1035, 1186
Cac8I GCNNGC 3 cut(s) 607, 1036, 1450
Cfr13I GGNCC 3 cut(s) 1076, 1271, 1420
CsiI ACCWGGT 1 cut(s) 1072
Csp6I GTAC 4 cut(s) 372, 1070, 1122, 1368
CviAII CATG 8 cut(s) 88, 482, 515, 610, 926, 1039, 1216, 1486
CviQI GTAC 4 cut(s) 372, 1070, 1122, 1368
DdeI CTNAG 1 cut(s) 556
DpnI GATC 4 cut(s) 282, 756, 920, 1102
DpnII GATC 4 cut(s) 280, 754, 918, 1100
DrdI GACNNNNNNGTC 1 cut(s) 134
DriI GACNNNNNGTC 1 cut(s) 1328
DseDI GACNNNNNNGTC 1 cut(s) 134
Eam1104I CTCTTC 1 cut(s) 608
Eam1105I GACNNNNNGTC 1 cut(s) 1328
EarI CTCTTC 1 cut(s) 608
Ecl136II GAGCTC 1 cut(s) 22
Eco130I CCWWGG 1 cut(s) 1438
Eco147I AGGCCT 1 cut(s) 71
Eco24I GRGCYC 1 cut(s) 24
Eco31I GGTCTC 2 cut(s) 107, 642
Eco47I GGWCC 3 cut(s) 1076, 1271, 1420
Eco53kI GAGCTC 1 cut(s) 22
Eco57I CTGAAG 3 cut(s) 378, 792, 828
EcoICRI GAGCTC 1 cut(s) 22
EcoRII CCWGG 2 cut(s) 970, 1072
EcoT14I CCWWGG 1 cut(s) 1438
EcoT38I GRGCYC 1 cut(s) 24
ErhI CCWWGG 1 cut(s) 1438
FaeI CATG 8 cut(s) 91, 485, 518, 613, 929, 1042, 1219, 1489
FalI AAGNNNNNCTT 2 cut(s) 790, 822
FatI CATG 8 cut(s) 87, 481, 514, 609, 925, 1038, 1215, 1485
FblI GTMKAC 1 cut(s) 138
Fnu4HI GCNGC 3 cut(s) 873, 1463, 1502
FokI GGATG 8 cut(s) 217, 641, 665, 709, 1102, 1272, 1326, 1512
FriOI GRGCYC 1 cut(s) 24
Fsp4HI GCNGC 3 cut(s) 873, 1463, 1502
GluI GCNGC 3 cut(s) 873, 1463, 1502
HaeIII GGCC 2 cut(s) 71, 1452
HapII CCGG 1 cut(s) 144
Hin1II CATG 8 cut(s) 91, 485, 518, 613, 929, 1042, 1219, 1489
HincII GTYRAC 1 cut(s) 1407
HindII GTYRAC 1 cut(s) 1407
HinfI GANTC 7 cut(s) 147, 268, 422, 538, 593, 865, 1408
HpaII CCGG 1 cut(s) 144
HphI GGTGA 3 cut(s) 290, 359, 1374
Hpy166II GTNNAC 4 cut(s) 118, 139, 1370, 1407
Hpy188I TCNGA 9 cut(s) 226, 385, 559, 743, 811, 898, 934, 1431, 1530
Hpy188III TCNNGA 3 cut(s) 144, 707, 1352
Hpy8I GTNNAC 4 cut(s) 118, 139, 1370, 1407
HpyAV CCTTC 4 cut(s) 436, 444, 768, 1556
HpyCH4III ACNGT 4 cut(s) 376, 766, 1030, 1237
HpyCH4IV ACGT 2 cut(s) 120, 1396
HpyF10VI GCNNNNNNNGC 3 cut(s) 236, 1454, 1471
HpyF3I CTNAG 1 cut(s) 556
HpySE526I ACGT 2 cut(s) 120, 1396
Hsp92II CATG 8 cut(s) 91, 485, 518, 613, 929, 1042, 1219, 1489
Kpn2I TCCGGA 1 cut(s) 143
KpnI GGTACC 1 cut(s) 1073
Kzo9I GATC 4 cut(s) 280, 754, 918, 1100
LmnI GCTCC 1 cut(s) 974
Lsp1109I GCAGC 3 cut(s) 859, 1474, 1513
LweI GCATC 7 cut(s) 25, 102, 217, 1124, 1294, 1348, 1534
MabI ACCWGGT 1 cut(s) 1072
MaeII ACGT 2 cut(s) 120, 1396
MaeIII GTNAC 4 cut(s) 295, 347, 364, 487
MalI GATC 4 cut(s) 282, 756, 920, 1102
MboI GATC 4 cut(s) 280, 754, 918, 1100
MhlI GDGCHC 2 cut(s) 24, 1231
MluCI AATT 5 cut(s) 668, 892, 956, 1156, 1190
MlyI GAGTC 2 cut(s) 431, 1402
MmeI TCCRAC 2 cut(s) 1078, 1189
MroI TCCGGA 1 cut(s) 143
MseI TTAA 4 cut(s) 62, 938, 960, 1137
MspA1I CMGCKG 4 cut(s) 320, 599, 872, 1465
MspI CCGG 1 cut(s) 144
MspR9I CCNGG 2 cut(s) 972, 1074
Mva1269I GAATGC 1 cut(s) 556
MvaI CCWGG 2 cut(s) 972, 1074
MwoI GCNNNNNNNGC 3 cut(s) 236, 1454, 1471
NdeII GATC 4 cut(s) 280, 754, 918, 1100
NlaIII CATG 8 cut(s) 91, 485, 518, 613, 929, 1042, 1219, 1489
NlaIV GGNNCC 3 cut(s) 604, 850, 1071
NmuCI GTSAC 1 cut(s) 347
PceI AGGCCT 1 cut(s) 71
PcsI WCGNNNNNNNCGW 1 cut(s) 117
PctI GAATGC 1 cut(s) 556
PfeI GAWTC 5 cut(s) 147, 268, 538, 593, 865
PflMI CCANNNNNTGG 2 cut(s) 323, 1097
PkrI GCNGC 3 cut(s) 874, 1464, 1503
PleI GAGTC 2 cut(s) 430, 1402
PpsI GAGTC 2 cut(s) 430, 1402
Psp124BI GAGCTC 1 cut(s) 24
Psp6I CCWGG 2 cut(s) 970, 1072
PspGI CCWGG 2 cut(s) 970, 1072
PspN4I GGNNCC 3 cut(s) 604, 850, 1071
PspPI GGNCC 3 cut(s) 1076, 1271, 1420
PstI CTGCAG 2 cut(s) 1021, 1450
PvuII CAGCTG 3 cut(s) 320, 872, 1465
RsaI GTAC 4 cut(s) 373, 1071, 1123, 1369
RsaNI GTAC 4 cut(s) 372, 1070, 1122, 1368
SacI GAGCTC 1 cut(s) 24
SaqAI TTAA 4 cut(s) 62, 938, 960, 1137
SatI GCNGC 3 cut(s) 873, 1463, 1502
Sau3AI GATC 4 cut(s) 280, 754, 918, 1100
Sau96I GGNCC 3 cut(s) 1076, 1271, 1420
SchI GAGTC 2 cut(s) 431, 1402
ScrFI CCNGG 2 cut(s) 972, 1074
SduI GDGCHC 2 cut(s) 24, 1231
SexAI ACCWGGT 1 cut(s) 1072
SfaNI GCATC 7 cut(s) 25, 102, 217, 1124, 1294, 1348, 1534
SfcI CTRYAG 2 cut(s) 1017, 1446
SinI GGWCC 3 cut(s) 1076, 1271, 1420
SmlI CTYRAG 4 cut(s) 639, 883, 1296, 1350
SmoI CTYRAG 4 cut(s) 639, 883, 1296, 1350
Sse9I AATT 5 cut(s) 668, 892, 956, 1156, 1190
SseBI AGGCCT 1 cut(s) 71
SsiI CCGC 2 cut(s) 597, 1478
SstI GAGCTC 1 cut(s) 24
StuI AGGCCT 1 cut(s) 71
StyD4I CCNGG 2 cut(s) 970, 1072
StyI CCWWGG 1 cut(s) 1438
TaaI ACNGT 4 cut(s) 376, 766, 1030, 1237
TaiI ACGT 2 cut(s) 123, 1399
TaqI TCGA 1 cut(s) 111
TaqII GACCGA 1 cut(s) 1288
TasI AATT 5 cut(s) 668, 892, 956, 1156, 1190
TfiI GAWTC 5 cut(s) 147, 268, 538, 593, 865
Tru1I TTAA 4 cut(s) 62, 938, 960, 1137
Tru9I TTAA 4 cut(s) 62, 938, 960, 1137
TscAI CASTG 6 cut(s) 163, 540, 794, 1026, 1035, 1186
TseFI GTSAC 1 cut(s) 347
TseI GCWGC 3 cut(s) 872, 1462, 1501
Tsp45I GTSAC 1 cut(s) 347
TspDTI ATGAA 5 cut(s) 48, 189, 470, 626, 1474
TspGWI ACGGA 1 cut(s) 1539
TspRI CASTG 6 cut(s) 163, 540, 794, 1026, 1035, 1186
Van91I CCANNNNNTGG 2 cut(s) 323, 1097
VpaK11BI GGWCC 3 cut(s) 1076, 1271, 1420
XapI RAATTY 1 cut(s) 956
XcmI CCANNNNNNNNNTGG 2 cut(s) 1063, 1094
XmiI GTMKAC 1 cut(s) 138
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.