AT5G53080

Tetratricopeptide repeat

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
5
OG0009192
Physical Location & Seq
Forward (+)
21520513 .. 21523266
2754 bp
Loading structure...
UTR
Exon/CDS
Intron
AT5G53080.1

Sequence Viewer

Length: 1695 bp
ATGGTGTTCTCTAACTCTCTCCTCTCTTCGACCACTTCGCTTACCACATGGGCAAATCAATCAAGTTCTCAGTCAAGTCTTTCCCCGAGATATTCGACATGGCAGTGTGTTTGTTTACGTAATCAGAAACGCAAACCTAAGCTCTACTTGATTCCCGCTCGCCATTTTTTATCGACTCCAATTGATTCAGTCTCCTCCTCCTCAATAACGGCTTCACGTTATGCTACTTCTGGCGTTTCTGAAGTTCAAAGGTCTACTTCGAGCAACAATGTTACTGAGATGGAAGAGTTTGAGATGGAGTTGCAAGAGTTGTTTAATGAAGTCAAAAGTATGGTGAAGATTGGGAAGGAAAGTGACGCAATGGACCTTCTTCGAGCGAATTATGTTGCTGTGAAAGAAGAGCTGGATTCGGGTTTGAAAGGTATCGAACAAGCTGCTGTTCTTGACATCATTGCTTTGGGGTATATGGCTGTTGGAGACTTGAAACCTGTCCCCGCATTGCTTGATATGATAAACAAGATTGTTGATAATTTAAAAGACTCCGAACCTCTTTTGGATTCAGTACTTATGCATGTTGGCAGTATGTATTCGGTAATAGGGAAGTTTGAAAACGCTATACTCGTGCATCAAAGGGCTATTCGTATATTAGAGAATAGATATGGTAAATGCAATACTTTACTTGTCACACCATTACTTGGTATGGCTAAGAGTTTTGCTTCTGATGGAAAAGCCACTAAAGCGATTGGTGTTTATGAGCGTACGTTGACTATCTTAGAACGGAATAGAGGTTCTGAGAGTGAGGATCTAGTAGTTCCGTTATTTTCACTCGGTAAACTTCTGCTCAAAGAAGGTAAAGCTGCTGAAGCAGAAATTCCTTTTACCAGCATTGTAAATATATACAAGAAGATATACGGAGAGAGAGATGGAAGAGTTGGCATGGCCATGTGTTCCCTTGCTAATGCTAAGTGCTCAAAAGGTGATGCAAATGAAGCTGTTGATATCTACAGGAATGCTCTACGAATAATCAAAGACTCAAATTATATGACAATAGACAACAGTATCTTGGAAAACATGAGGATAGATCTTGCTGAGCTGCTTCATTTCGTTGGAAGGGGAGATGAAGGACGAGAGTTACTAGAAGAATGCTTATTAATAAATGAGAGATTCAAAGGGAAAAACCATCCTAGCATGGCTACACATCTTATAAACCTTGCAGCATCTTATTCGCGTTCCAAGAATTATGTGGAGGCAGAACGATTGCTACGAACTTGTTTGAACATCATGGAGGTATCAGTTGGCTCAGAAGGTCAGTCCATAACCTTCCCAATGCTAAATCTTGCAGTCACTCTTTCCCAACTGAATCGTGATGAGGAAGCCGAGCAAATAGCCTTAAAGGTTCTACGCATCCGTGAGAAGGCATTTGGCGAAGACTCTCTCCCTGTTGGAGAGGCGCTGGACTGTTTGGTATCGATCCAAGCGAGACTAGGAAGAGATGATGGAGAAATATTGGGTTTGCTGAAAAGGGTTATGATGATCCAAGAGAAAGAGTTTGGTCCTTCAGCTCAAGAACTCATTGTTACTCTCCAGAAGATCATTCATTTCTTGGAGAAATTGGAGATGAAAGATGATAAATTTAAGTTTAGGAGAAGATTAGCTTTACTTAGAGAGAGATACAAGCAGAGTCTTAGCTACTAG
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
TPR_10 TPR_12 TPR_8

Protein Analysis

564

Amino Acids

63.11

Weight (kDa)

6.47

Isoelectric Point (pI)

40.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
TPR_NPHP3 PF24885 180 - 264 4.5e-06 Nephrocystin-3 TPR domain
TPR_MalT PF17874 188 - 469 8.7e-07 MalT-like TPR region
TPR_12 PF13424 231 - 302 1.4e-06 Tetratricopeptide repeat
TPR_NPHP3 PF24885 328 - 473 6.1e-08 Nephrocystin-3 TPR domain
TPR_12 PF13424 358 - 429 1.8e-13 Tetratricopeptide repeat
TPR_10 PF13374 443 - 478 3.6e-08 Tetratricopeptide repeat
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 1 cut(s) 1205
AccB7I CCANNNNNTGG 1 cut(s) 695
AccBSI CCGCTC 1 cut(s) 158
AccI GTMKAC 1 cut(s) 254
AccII CGCG 1 cut(s) 1228
AciI CCGC 2 cut(s) 156, 495
AclWI GGATC 3 cut(s) 810, 1465, 1528
AcoI YGGCCR 1 cut(s) 939
AcsI RAATTY 2 cut(s) 870, 1631
AcuI CTGAAG 3 cut(s) 261, 882, 1542
AfaI GTAC 2 cut(s) 564, 760
AfiI CCNNNNNNNGG 2 cut(s) 695, 1414
AgsI TTSAA 6 cut(s) 248, 418, 484, 608, 1168, 1276
AloI GAACNNNNNNTCC 2 cut(s) 772, 804
AluBI AGCT 9 cut(s) 142, 403, 434, 857, 992, 1093, 1562, 1655, 1689
AluI AGCT 9 cut(s) 142, 403, 434, 857, 992, 1093, 1562, 1655, 1689
Alw21I GWGCWC 1 cut(s) 971
Alw26I GTCTC 3 cut(s) 196, 471, 1474
AlwI GGATC 3 cut(s) 810, 1465, 1528
Ama87I CYCGRG 1 cut(s) 85
AoxI GGCC 1 cut(s) 939
ApeKI GCWGC 4 cut(s) 434, 857, 1093, 1214
ApoI RAATTY 2 cut(s) 870, 1631
AseI ATTAAT 1 cut(s) 1151
AspLEI GCGC 1 cut(s) 1453
AspS9I GGNCC 2 cut(s) 364, 1553
AsuHPI GGTGA 2 cut(s) 346, 989
AvaI CYCGRG 1 cut(s) 85
AvaII GGWCC 2 cut(s) 364, 1553
BaeI ACNNNNGTAYC 2 cut(s) 1042, 1075
BalI TGGCCA 1 cut(s) 941
BauI CACGAG 1 cut(s) 620
BbsI GAAGAC 1 cut(s) 1434
Bbv12I GWGCWC 1 cut(s) 971
BbvI GCAGC 4 cut(s) 421, 844, 1080, 1226
BccI CCATC 6 cut(s) 274, 289, 716, 917, 1188, 1490
BceAI ACGGC 1 cut(s) 225
BcgI CGANNNNNNTGC 4 cut(s) 416, 450, 1206, 1240
BcoDI GTCTC 3 cut(s) 196, 471, 1474
BfaI CTAG 5 cut(s) 806, 1136, 1185, 1484, 1693
BfmI CTRYAG 1 cut(s) 1003
BfoI RGCGCY 1 cut(s) 1454
BglII AGATCT 1 cut(s) 1081
BisI GCNGC 4 cut(s) 435, 858, 1094, 1215
BlpI GCTNAGC 1 cut(s) 1089
BlsI GCNGC 4 cut(s) 436, 859, 1095, 1216
BmcAI AGTACT 1 cut(s) 564
Bme18I GGWCC 2 cut(s) 364, 1553
BmeT110I CYCGRG 1 cut(s) 85
BmgT120I GGNCC 2 cut(s) 364, 1553
BmsI GCATC 4 cut(s) 634, 970, 1226, 1413
BpiI GAAGAC 1 cut(s) 1434
BpmI CTGGAG 1 cut(s) 1568
Bpu10I CCTNAGC 1 cut(s) 138
Bpu1102I GCTNAGC 1 cut(s) 1089
BpuEI CTTGAG 1 cut(s) 1548
Bsa29I ATCGAT 1 cut(s) 1469
BsaAI YACGTR 1 cut(s) 119
Bsc4I CCNNNNNNNGG 2 cut(s) 695, 1414
Bse3DI GCAATG 3 cut(s) 366, 450, 497
BseCI ATCGAT 1 cut(s) 1469
BseGI GGATG 2 cut(s) 1180, 1404
BseLI CCNNNNNNNGG 2 cut(s) 695, 1414
BseMI GCAATG 3 cut(s) 366, 450, 497
BseMII CTCAG 5 cut(s) 83, 267, 783, 1080, 1314
BseRI GAGGAG 4 cut(s) 11, 184, 187, 190
BseXI GCAGC 4 cut(s) 421, 844, 1080, 1226
Bsh1236I CGCG 1 cut(s) 1228
BshFI GGCC 1 cut(s) 941
BshVI ATCGAT 1 cut(s) 1469
BsiHKAI GWGCWC 1 cut(s) 971
BsiHKCI CYCGRG 1 cut(s) 85
BsiWI CGTACG 1 cut(s) 758
BslFI GGGAC 1 cut(s) 476
BslI CCNNNNNNNGG 2 cut(s) 695, 1414
BsmAI GTCTC 3 cut(s) 196, 471, 1474
BsmFI GGGAC 1 cut(s) 476
BsmI GAATGC 2 cut(s) 1015, 1148
BsnI GGCC 1 cut(s) 941
BsoBI CYCGRG 1 cut(s) 85
Bsp1286I GDGCHC 1 cut(s) 971
Bsp143I GATC 5 cut(s) 802, 1081, 1470, 1533, 1590
Bsp1720I GCTNAGC 1 cut(s) 1089
BspACI CCGC 2 cut(s) 156, 495
BspANI GGCC 1 cut(s) 941
BspCNI CTCAG 5 cut(s) 82, 268, 784, 1081, 1313
BspDI ATCGAT 1 cut(s) 1469
BspFNI CGCG 1 cut(s) 1228
BspPI GGATC 3 cut(s) 810, 1465, 1528
BspQI GCTCTTC 1 cut(s) 393
BsrBI CCGCTC 1 cut(s) 158
BsrDI GCAATG 3 cut(s) 366, 450, 497
BssMI GATC 5 cut(s) 802, 1081, 1470, 1533, 1590
BssSI CACGAG 1 cut(s) 620
Bst2BI CACGAG 1 cut(s) 620
Bst4CI ACNGT 2 cut(s) 1058, 1460
Bst6I CTCTTC 5 cut(s) 31, 279, 393, 922, 1483
BstBAI YACGTR 1 cut(s) 119
BstC8I GCNNGC 1 cut(s) 160
BstF5I GGATG 2 cut(s) 1180, 1404
BstFNI CGCG 1 cut(s) 1228
BstH2I RGCGCY 1 cut(s) 1454
BstHHI GCGC 1 cut(s) 1453
BstKTI GATC 5 cut(s) 805, 1084, 1473, 1536, 1593
BstMAI GTCTC 3 cut(s) 196, 471, 1474
BstMBI GATC 5 cut(s) 802, 1081, 1470, 1533, 1590
BstMWI GCNNNNNNNGC 3 cut(s) 737, 863, 989
BstNSI RCATGY 1 cut(s) 575
BstSFI CTRYAG 1 cut(s) 1003
BstSNI TACGTA 1 cut(s) 119
BstUI CGCG 1 cut(s) 1228
BstV1I GCAGC 4 cut(s) 421, 844, 1080, 1226
BstV2I GAAGAC 1 cut(s) 1434
BstX2I RGATCY 2 cut(s) 802, 1081
BstYI RGATCY 2 cut(s) 802, 1081
Bsu15I ATCGAT 1 cut(s) 1469
BsuRI GGCC 1 cut(s) 941
BsuTUI ATCGAT 1 cut(s) 1469
BtsCI GGATG 2 cut(s) 1180, 1404
BtsI GCAGTG 1 cut(s) 110
BtsIMutI CAGTG 1 cut(s) 110
Cac8I GCNNGC 1 cut(s) 160
CfoI GCGC 1 cut(s) 1453
Cfr13I GGNCC 2 cut(s) 364, 1553
ClaI ATCGAT 1 cut(s) 1469
CseI GACGC 1 cut(s) 365
Csp6I GTAC 2 cut(s) 563, 759
CviAII CATG 8 cut(s) 48, 99, 572, 937, 943, 1072, 1189, 1282
CviQI GTAC 2 cut(s) 563, 759
DpnI GATC 5 cut(s) 804, 1083, 1472, 1535, 1592
DpnII GATC 5 cut(s) 802, 1081, 1470, 1533, 1590
DraI TTTAAA 1 cut(s) 534
EaeI YGGCCR 1 cut(s) 939
Eam1104I CTCTTC 5 cut(s) 31, 279, 393, 922, 1483
EarI CTCTTC 5 cut(s) 31, 279, 393, 922, 1483
Eco105I TACGTA 1 cut(s) 119
Eco32I GATATC 1 cut(s) 1000
Eco47I GGWCC 2 cut(s) 364, 1553
Eco57I CTGAAG 3 cut(s) 261, 882, 1542
Eco88I CYCGRG 1 cut(s) 85
EcoRV GATATC 1 cut(s) 1000
EcoT22I ATGCAT 1 cut(s) 573
FaeI CATG 8 cut(s) 51, 102, 575, 940, 946, 1075, 1192, 1285
FalI AAGNNNNNCTT 6 cut(s) 131, 163, 241, 273, 1639, 1671
FaqI GGGAC 1 cut(s) 476
FatI CATG 8 cut(s) 47, 98, 571, 936, 942, 1071, 1188, 1281
FauI CCCGC 2 cut(s) 163, 502
FblI GTMKAC 1 cut(s) 254
Fnu4HI GCNGC 4 cut(s) 435, 858, 1094, 1215
FokI GGATG 2 cut(s) 1167, 1391
Fsp4HI GCNGC 4 cut(s) 435, 858, 1094, 1215
FspBI CTAG 5 cut(s) 806, 1136, 1185, 1484, 1693
GlaI GCGC 1 cut(s) 1452
GluI GCNGC 4 cut(s) 435, 858, 1094, 1215
GsuI CTGGAG 1 cut(s) 1568
HaeII RGCGCY 1 cut(s) 1454
HaeIII GGCC 1 cut(s) 941
HgaI GACGC 1 cut(s) 365
HhaI GCGC 1 cut(s) 1453
Hin1II CATG 8 cut(s) 51, 102, 575, 940, 946, 1075, 1192, 1285
Hin6I GCGC 1 cut(s) 1451
HinP1I GCGC 1 cut(s) 1451
HincII GTYRAC 1 cut(s) 765
HindII GTYRAC 1 cut(s) 765
HphI GGTGA 2 cut(s) 346, 989
Hpy166II GTNNAC 4 cut(s) 116, 255, 765, 833
Hpy188I TCNGA 6 cut(s) 126, 241, 544, 721, 793, 1303
Hpy188III TCNNGA 4 cut(s) 443, 1364, 1565, 1585
Hpy8I GTNNAC 4 cut(s) 116, 255, 765, 833
HpyAV CCTTC 9 cut(s) 340, 377, 842, 1104, 1115, 1298, 1330, 1408, 1566
HpyCH4III ACNGT 2 cut(s) 1058, 1460
HpyCH4IV ACGT 3 cut(s) 118, 217, 761
HpyCH4V TGCA 7 cut(s) 304, 571, 625, 669, 983, 1214, 1340
HpyF10VI GCNNNNNNNGC 3 cut(s) 737, 863, 989
HpySE526I ACGT 3 cut(s) 118, 217, 761
Hsp92II CATG 8 cut(s) 51, 102, 575, 940, 946, 1075, 1192, 1285
HspAI GCGC 1 cut(s) 1451
Kzo9I GATC 5 cut(s) 802, 1081, 1470, 1533, 1590
LguI GCTCTTC 1 cut(s) 393
LpnPI CCDG 8 cut(s) 216, 389, 501, 895, 991, 1439, 1452, 1598
Lsp1109I GCAGC 4 cut(s) 421, 844, 1080, 1226
LweI GCATC 4 cut(s) 634, 970, 1226, 1413
MaeI CTAG 5 cut(s) 806, 1136, 1185, 1484, 1693
MaeII ACGT 3 cut(s) 118, 217, 761
MaeIII GTNAC 6 cut(s) 271, 353, 682, 1131, 1342, 1576
MalI GATC 5 cut(s) 804, 1083, 1472, 1535, 1592
MbiI CCGCTC 1 cut(s) 158
MboI GATC 5 cut(s) 802, 1081, 1470, 1533, 1590
MfeI CAATTG 1 cut(s) 180
MflI RGATCY 2 cut(s) 802, 1081
MhlI GDGCHC 1 cut(s) 971
MlsI TGGCCA 1 cut(s) 941
MluCI AATT 8 cut(s) 180, 379, 529, 870, 1036, 1237, 1610, 1631
MluNI TGGCCA 1 cut(s) 941
MlyI GAGTC 5 cut(s) 169, 533, 1025, 1424, 1690
MmeI TCCRAC 3 cut(s) 454, 1087, 1423
Mox20I TGGCCA 1 cut(s) 941
Mph1103I ATGCAT 1 cut(s) 573
MscI TGGCCA 1 cut(s) 941
MseI TTAA 5 cut(s) 315, 533, 1151, 1391, 1635
MslI CAYNNNNRTG 2 cut(s) 103, 941
Msp20I TGGCCA 1 cut(s) 941
MunI CAATTG 1 cut(s) 180
Mva1269I GAATGC 2 cut(s) 1015, 1148
MvnI CGCG 1 cut(s) 1228
MwoI GCNNNNNNNGC 3 cut(s) 737, 863, 989
NdeII GATC 5 cut(s) 802, 1081, 1470, 1533, 1590
NlaIII CATG 8 cut(s) 51, 102, 575, 940, 946, 1075, 1192, 1285
NmeAIII GCCGAG 1 cut(s) 1402
NmuCI GTSAC 3 cut(s) 353, 682, 1342
NsiI ATGCAT 1 cut(s) 573
NspI RCATGY 1 cut(s) 575
PciSI GCTCTTC 1 cut(s) 393
PcsI WCGNNNNNNNCGW 3 cut(s) 618, 1261, 1475
PctI GAATGC 2 cut(s) 1015, 1148
PfeI GAWTC 6 cut(s) 151, 185, 407, 557, 1164, 1360
Pfl23II CGTACG 1 cut(s) 758
PflMI CCANNNNNTGG 1 cut(s) 695
PkrI GCNGC 4 cut(s) 436, 859, 1095, 1216
PleI GAGTC 5 cut(s) 169, 533, 1025, 1424, 1689
PpsI GAGTC 5 cut(s) 169, 533, 1025, 1424, 1689
Ppu21I YACGTR 1 cut(s) 119
PshBI ATTAAT 1 cut(s) 1151
PsiI TTATAA 1 cut(s) 1205
PspLI CGTACG 1 cut(s) 758
PspPI GGNCC 2 cut(s) 364, 1553
PsrI GAACNNNNNNTAC 2 cut(s) 1245, 1277
PsuI RGATCY 2 cut(s) 802, 1081
RsaI GTAC 2 cut(s) 564, 760
RsaNI GTAC 2 cut(s) 563, 759
RseI CAYNNNNRTG 2 cut(s) 103, 941
SapI GCTCTTC 1 cut(s) 393
SaqAI TTAA 5 cut(s) 315, 533, 1151, 1391, 1635
SatI GCNGC 4 cut(s) 435, 858, 1094, 1215
Sau3AI GATC 5 cut(s) 802, 1081, 1470, 1533, 1590
Sau96I GGNCC 2 cut(s) 364, 1553
ScaI AGTACT 1 cut(s) 564
SchI GAGTC 5 cut(s) 169, 533, 1025, 1424, 1690
SduI GDGCHC 1 cut(s) 971
SfaNI GCATC 4 cut(s) 634, 970, 1226, 1413
SfcI CTRYAG 1 cut(s) 1003
SinI GGWCC 2 cut(s) 364, 1553
SmiMI CAYNNNNRTG 2 cut(s) 103, 941
SmlI CTYRAG 1 cut(s) 1563
SmoI CTYRAG 1 cut(s) 1563
SnaBI TACGTA 1 cut(s) 119
Sse9I AATT 8 cut(s) 180, 379, 529, 870, 1036, 1237, 1610, 1631
SsiI CCGC 2 cut(s) 156, 495
SspI AATATT 1 cut(s) 1506
SspMI CTAG 5 cut(s) 806, 1136, 1185, 1484, 1693
TaaI ACNGT 2 cut(s) 1058, 1460
TaiI ACGT 3 cut(s) 121, 220, 764
TaqI TCGA 7 cut(s) 29, 95, 173, 260, 373, 426, 1469
TasI AATT 8 cut(s) 180, 379, 529, 870, 1036, 1237, 1610, 1631
TatI WGTACW 1 cut(s) 562
TfiI GAWTC 6 cut(s) 151, 185, 407, 557, 1164, 1360
Tru1I TTAA 5 cut(s) 315, 533, 1151, 1391, 1635
Tru9I TTAA 5 cut(s) 315, 533, 1151, 1391, 1635
TscAI CASTG 1 cut(s) 110
TseFI GTSAC 3 cut(s) 353, 682, 1342
TseI GCWGC 4 cut(s) 434, 857, 1093, 1214
Tsp45I GTSAC 3 cut(s) 353, 682, 1342
TspDTI ATGAA 6 cut(s) 333, 1002, 1088, 1134, 1586, 1634
TspGWI ACGGA 4 cut(s) 793, 804, 927, 1397
TspRI CASTG 1 cut(s) 110
Van91I CCANNNNNTGG 1 cut(s) 695
VpaK11BI GGWCC 2 cut(s) 364, 1553
VspI ATTAAT 1 cut(s) 1151
XapI RAATTY 2 cut(s) 870, 1631
XceI RCATGY 1 cut(s) 575
XcmI CCANNNNNNNNNTGG 1 cut(s) 1240
XmiI GTMKAC 1 cut(s) 254
XspI CTAG 5 cut(s) 806, 1136, 1185, 1484, 1693
ZrmI AGTACT 1 cut(s) 564
Zsp2I ATGCAT 1 cut(s) 573
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.