AT1G16830

Pentatricopeptide repeat domain

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0017915
Physical Location & Seq
Forward (+)
5760626 .. 5762619
1994 bp
Loading structure...
UTR
Exon/CDS
Intron
AT1G16830.1

Sequence Viewer

Length: 1827 bp
ATGCTATGGAGATGCAATTGGGTGAAGCAGAGGAAGAGAATCCTTAACACACTCAGTTTCTCTTCGATTCACGGTCAATATCCTCGGGAGTATACTGCCGCGAAGCCACTCACGCACGATAATGTGTATTCTTGTTTACGAGAATCTCCAGCTGATCTCAAAACTTTGAATTTCTTCTTCTGGTGCGCGAAGCAGAACAATTACTTCCACGATGATCGAGCATTTGATCACATGGTTGGTGTTGTTGAGAAACTAACTCGTGAATACTATAGCATTGATCGAATCATAGAGAGATTGAAAATCTCTGGTTGTGAGATTAAGCCTCGGGTTTTTTTGTTGTTGCTGGAAATATTTTGGCGTGGCCATATCTATGATAAGGCTATTGAGGTTTACACTGGCATGAGTAGTTTTGGATTTGTGCCCAACACTCGTGCCATGAATATGATGATGGATGTTAATTTCAAACTCAATGTTGTTAATGGAGCTCTGGAAATTTTTGAAGGAATCCGTTTTCGAAATTTCTTTAGTTTCGACATTGCATTGAGTCATTTTTGCAGTAGAGGGGGTAGAGGGGATTTGGTTGGTGTGAAGATAGTTTTGAAGAGAATGATTGGAGAAGGTTTTTATCCTAACAGAGAGAGGTTTGGGCAGATTCTTAGGCTGTGCTGTAGAACAGGCTGCGTCTCTGAAGCATTTCAAGTAGTTGGATTGATGATTTGTAGTGGAATCTCTGTATCTGTTAATGTATGGAGCATGTTGGTTAGCGGGTTTTTTCGTTCAGGAGAGCCGCAAAAGGCGGTTGATCTGTTCAATAAGATGATTCAGATTGGTTGCTCACCTAATCTTGTGACGTATACTAGTTTGATCAAAGGGTTTGTGGATTTAGGAATGGTTGATGAAGCGTTTACCGTGCTAAGTAAAGTGCAATCTGAAGGTTTAGCTCCAGATATTGTTCTTTGCAATTTGATGATACACACGTACACAAGACTCGGAAGATTCGAAGAAGCTCGTAAGGTTTTCACTAGTTTGGAAAAAAGGAAACTTGTGCCGGATCAGTATACTTTTGCATCAATACTGTCTAGTCTATGTTTGTCTGGGAAGTTTGATCTCGTTCCTAGGATCACCCACGGTATAGGAACAGATTTTGATCTGGTTACTGGAAACTTGCTCTCAAACTGTTTCAGCAAGATTGGTTACAATTCGTACGCTTTGAAAGTACTCAGCATCATGTCTTACAAAGATTTTGCTTTGGATTGTTATACATATACTGTGTATCTTAGTGCACTTTGTCGAGGAGGAGCACCTCGCGCTGCCATTAAGATGTATAAAATAATAATCAAGGAGAAAAAACATCTCGATGCTCATTTTCATTCTGCGATAATCGACAGTCTTATAGAGCTTGGTAAATACAATACCGCGGTTCATTTGTTTAAACGATGCATCTTGGAGAAGTATCCTTTAGATGTTGTGTCGTATACAGTAGCTATTAAGGGGCTTGTGCGTGCGAAAAGGATCGAGGAAGCCTATTCTTTGTGTTGCGACATGAAAGAAGGTGGGATTTATCCGAATCGACGGACTTATCGGACTATTATTTCTGGTCTGTGCAAGGAGAAGGAGACTGAGAAAGTGAGAAAGATTTTGAGGGAATGCATCCAGGAGGGAGTTGAGTTGGATCCTAATACTAAGTTTCAAGTGTATAGTCTCTTGTCTCGATATCGCGGAGACTTTTCTGAATTTAGATCGGTTTTCGAGAAATGGAAATCGGAATTTACAGAAAATGTGGATGTTTCCGATTCCGACGATGAATTATTTGTTTCTGTTGGTTGA

Protein Analysis

608

Amino Acids

69.67

Weight (kDa)

8.91

Isoelectric Point (pI)

27.35

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PPR_long PF17177 199 - 309 5.1e-06 Pentacotripeptide-repeat region of PRORP
TPR_24 PF23276 217 - 342 1.2e-07 Fungal tetratrico peptide repeats
PPR_3 PF13812 241 - 293 2.5e-07 Pentatricopeptide repeat domain
PPR_2 PF13041 247 - 293 1.2e-12 PPR repeat family
PPR PF01535 249 - 278 9.7e-06 PPR repeat
PPR_1 PF12854 277 - 307 4.3e-08 PPR repeat
PPR_3 PF13812 304 - 360 6.7e-06 Pentatricopeptide repeat domain
PPR_2 PF13041 315 - 363 4.2e-11 PPR repeat family
PPR_2 PF13041 488 - 536 1.1e-14 PPR repeat family
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)
AccI GTMKAC 4 cut(s) 92, 854, 1058, 1475
AccII CGCG 5 cut(s) 101, 188, 1308, 1418, 1719
AciI CCGC 7 cut(s) 99, 765, 788, 797, 1416, 1418, 1719
AclWI GGATC 5 cut(s) 1059, 1127, 1520, 1667, 1680
AcoI YGGCCR 1 cut(s) 361
AcsI RAATTY 5 cut(s) 169, 492, 517, 1733, 1766
AcuI CTGAAG 2 cut(s) 708, 951
AfaI GTAC 3 cut(s) 980, 1205, 1218
AflIII ACRYGT 1 cut(s) 975
AgsI TTSAA 9 cut(s) 169, 298, 463, 500, 601, 698, 811, 1213, 1691
AhlI ACTAGT 2 cut(s) 857, 1022
AjnI CCWGG 1 cut(s) 1653
AluBI AGCT 6 cut(s) 152, 485, 941, 1007, 1399, 1484
AluI AGCT 6 cut(s) 152, 485, 941, 1007, 1399, 1484
Alw21I GWGCWC 3 cut(s) 487, 1285, 1303
Alw26I GTCTC 5 cut(s) 688, 1610, 1706, 1713, 1716
Alw44I GTGCAC 1 cut(s) 1281
AlwI GGATC 5 cut(s) 1059, 1127, 1520, 1667, 1680
Ama87I CYCGRG 2 cut(s) 84, 324
AoxI GGCC 1 cut(s) 361
ApaLI GTGCAC 1 cut(s) 1281
ApeKI GCWGC 2 cut(s) 678, 1310
ApoI RAATTY 5 cut(s) 169, 492, 517, 1733, 1766
Asp700I GAANNNNTTC 2 cut(s) 173, 693
AspA2I CCTAGG 1 cut(s) 1115
AspLEI GCGC 2 cut(s) 188, 1310
AsuHPI GGTGA 3 cut(s) 34, 828, 1114
AsuII TTCGAA 2 cut(s) 514, 999
AvaI CYCGRG 2 cut(s) 84, 324
AvrII CCTAGG 1 cut(s) 1115
BaeGI GKGCMC 2 cut(s) 423, 1285
BaeI ACNNNNGTAYC 2 cut(s) 962, 995
BalI TGGCCA 1 cut(s) 363
BamHI GGATCC 1 cut(s) 1672
BanII GRGCYC 1 cut(s) 487
BauI CACGAG 2 cut(s) 258, 429
Bbv12I GWGCWC 3 cut(s) 487, 1285, 1303
BbvI GCAGC 2 cut(s) 665, 1297
BccI CCATC 1 cut(s) 442
BciT130I CCWGG 1 cut(s) 1655
BciVI GTATCC 1 cut(s) 1464
BclI TGATCA 2 cut(s) 226, 864
BcoDI GTCTC 5 cut(s) 688, 1610, 1706, 1713, 1716
BcuI ACTAGT 2 cut(s) 857, 1022
BfaI CTAG 4 cut(s) 858, 1023, 1080, 1116
BfmI CTRYAG 2 cut(s) 268, 667
BfuI GTATCC 1 cut(s) 1464
BisI GCNGC 4 cut(s) 99, 679, 788, 1311
BlnI CCTAGG 1 cut(s) 1115
BlsI GCNGC 4 cut(s) 100, 680, 789, 1312
BmcAI AGTACT 1 cut(s) 1218
Bme1390I CCNGG 1 cut(s) 1655
BmeT110I CYCGRG 2 cut(s) 84, 324
BmiI GGNNCC 1 cut(s) 1674
BmrFI CCNGG 1 cut(s) 1655
BmsI GCATC 7 cut(s) 2, 1076, 1233, 1348, 1427, 1449, 1659
BpmI CTGGAG 2 cut(s) 132, 927
Bpu14I TTCGAA 2 cut(s) 514, 999
BsaAI YACGTR 1 cut(s) 978
BsaBI GATNNNNATC 1 cut(s) 1146
BsaJI CCNNGG 5 cut(s) 83, 323, 1115, 1126, 1416
Bse1I ACTGG 2 cut(s) 400, 1162
Bse3DI GCAATG 1 cut(s) 534
Bse8I GATNNNNATC 1 cut(s) 1146
BseBI CCWGG 1 cut(s) 1655
BseDI CCNNGG 5 cut(s) 83, 323, 1115, 1126, 1416
BseGI GGATG 3 cut(s) 457, 1650, 1789
BseJI GATNNNNATC 1 cut(s) 1146
BseMI GCAATG 1 cut(s) 534
BseMII CTCAG 3 cut(s) 67, 1234, 1611
BseNI ACTGG 2 cut(s) 400, 1162
BseRI GAGGAG 2 cut(s) 1308, 1311
BseSI GKGCMC 2 cut(s) 423, 1285
BseXI GCAGC 2 cut(s) 665, 1297
Bsh1236I CGCG 5 cut(s) 101, 188, 1308, 1418, 1719
BshFI GGCC 1 cut(s) 363
BsiHKAI GWGCWC 3 cut(s) 487, 1285, 1303
BsiHKCI CYCGRG 2 cut(s) 84, 324
BsiSI CCGG 1 cut(s) 1049
BsiWI CGTACG 1 cut(s) 1203
BsmAI GTCTC 5 cut(s) 688, 1610, 1706, 1713, 1716
BsmBI CGTCTC 1 cut(s) 688
BsmI GAATGC 1 cut(s) 1652
BsnI GGCC 1 cut(s) 363
BsoBI CYCGRG 2 cut(s) 84, 324
Bsp119I TTCGAA 2 cut(s) 514, 999
Bsp1286I GDGCHC 4 cut(s) 423, 487, 1285, 1303
BspACI CCGC 7 cut(s) 99, 765, 788, 797, 1416, 1418, 1719
BspANI GGCC 1 cut(s) 363
BspCNI CTCAG 3 cut(s) 66, 1233, 1612
BspFNI CGCG 5 cut(s) 101, 188, 1308, 1418, 1719
BspLI GGNNCC 1 cut(s) 1674
BspPI GGATC 5 cut(s) 1059, 1127, 1520, 1667, 1680
BspT104I TTCGAA 2 cut(s) 514, 999
BsrDI GCAATG 1 cut(s) 534
BsrI ACTGG 2 cut(s) 400, 1162
BssECI CCNNGG 5 cut(s) 83, 323, 1115, 1126, 1416
BssNAI GTATAC 4 cut(s) 93, 855, 1059, 1476
BssSI CACGAG 2 cut(s) 258, 429
BssT1I CCWWGG 1 cut(s) 1115
Bst1107I GTATAC 4 cut(s) 93, 855, 1059, 1476
Bst2BI CACGAG 2 cut(s) 258, 429
Bst2UI CCWGG 1 cut(s) 1655
Bst4CI ACNGT 8 cut(s) 74, 910, 1077, 1130, 1178, 1270, 1388, 1480
Bst6I CTCTTC 3 cut(s) 29, 67, 596
BstBAI YACGTR 1 cut(s) 978
BstBI TTCGAA 2 cut(s) 514, 999
BstC8I GCNNGC 1 cut(s) 1503
BstDEI CTNAG 7 cut(s) 53, 656, 914, 1220, 1277, 1620, 1683
BstDSI CCRYGG 2 cut(s) 1126, 1416
BstF5I GGATG 3 cut(s) 457, 1650, 1789
BstFNI CGCG 5 cut(s) 101, 188, 1308, 1418, 1719
BstHHI GCGC 2 cut(s) 188, 1310
BstMAI GTCTC 5 cut(s) 688, 1610, 1706, 1713, 1716
BstMWI GCNNNNNNNGC 2 cut(s) 112, 1307
BstNI CCWGG 1 cut(s) 1655
BstNSI RCATGY 1 cut(s) 757
BstSCI CCNGG 1 cut(s) 1653
BstSFI CTRYAG 2 cut(s) 268, 667
BstSLI GKGCMC 2 cut(s) 423, 1285
BstUI CGCG 5 cut(s) 101, 188, 1308, 1418, 1719
BstV1I GCAGC 2 cut(s) 665, 1297
BstX2I RGATCY 1 cut(s) 1672
BstYI RGATCY 1 cut(s) 1672
BstZ17I GTATAC 4 cut(s) 93, 855, 1059, 1476
BsuI GTATCC 1 cut(s) 1464
BsuRI GGCC 1 cut(s) 363
BtgI CCRYGG 2 cut(s) 1126, 1416
BtsCI GGATG 3 cut(s) 457, 1650, 1789
BtsIMutI CAGTG 1 cut(s) 393
Cac8I GCNNGC 1 cut(s) 1503
CfoI GCGC 2 cut(s) 188, 1310
Cfr42I CCGCGG 1 cut(s) 1419
CseI GACGC 1 cut(s) 670
Csp6I GTAC 3 cut(s) 979, 1204, 1217
CviAII CATG 6 cut(s) 232, 400, 436, 754, 1228, 1543
CviQI GTAC 3 cut(s) 979, 1204, 1217
DdeI CTNAG 7 cut(s) 53, 656, 914, 1220, 1277, 1620, 1683
DraI TTTAAA 1 cut(s) 1432
EaeI YGGCCR 1 cut(s) 361
Eam1104I CTCTTC 3 cut(s) 29, 67, 596
EarI CTCTTC 3 cut(s) 29, 67, 596
Ecl136II GAGCTC 1 cut(s) 485
Eco130I CCWWGG 1 cut(s) 1115
Eco24I GRGCYC 1 cut(s) 487
Eco32I GATATC 1 cut(s) 1715
Eco53kI GAGCTC 1 cut(s) 485
Eco57I CTGAAG 2 cut(s) 708, 951
Eco88I CYCGRG 2 cut(s) 84, 324
EcoICRI GAGCTC 1 cut(s) 485
EcoRII CCWGG 1 cut(s) 1653
EcoRV GATATC 1 cut(s) 1715
EcoT14I CCWWGG 1 cut(s) 1115
EcoT22I ATGCAT 2 cut(s) 1442, 1652
EcoT38I GRGCYC 1 cut(s) 487
ErhI CCWWGG 1 cut(s) 1115
Esp3I CGTCTC 1 cut(s) 688
FaeI CATG 6 cut(s) 235, 403, 439, 757, 1231, 1546
FatI CATG 6 cut(s) 231, 399, 435, 753, 1227, 1542
FauI CCCGC 1 cut(s) 758
FbaI TGATCA 2 cut(s) 226, 864
FblI GTMKAC 4 cut(s) 92, 854, 1058, 1475
Fnu4HI GCNGC 4 cut(s) 99, 679, 788, 1311
FokI GGATG 3 cut(s) 464, 1637, 1796
FriOI GRGCYC 1 cut(s) 487
Fsp4HI GCNGC 4 cut(s) 99, 679, 788, 1311
FspBI CTAG 4 cut(s) 858, 1023, 1080, 1116
GlaI GCGC 2 cut(s) 187, 1309
GluI GCNGC 4 cut(s) 99, 679, 788, 1311
GsuI CTGGAG 2 cut(s) 132, 927
HaeIII GGCC 1 cut(s) 363
HapII CCGG 1 cut(s) 1049
HgaI GACGC 1 cut(s) 670
HhaI GCGC 2 cut(s) 188, 1310
Hin1II CATG 6 cut(s) 235, 403, 439, 757, 1231, 1546
Hin6I GCGC 2 cut(s) 186, 1308
HinP1I GCGC 2 cut(s) 186, 1308
HpaII CCGG 1 cut(s) 1049
HphI GGTGA 3 cut(s) 34, 828, 1114
Hpy166II GTNNAC 9 cut(s) 93, 137, 391, 855, 906, 981, 1059, 1283, 1476
Hpy188III TCNNGA 8 cut(s) 86, 260, 488, 780, 944, 1355, 1710, 1750
Hpy8I GTNNAC 9 cut(s) 93, 137, 391, 855, 906, 981, 1059, 1283, 1476
Hpy99I CGWCG 2 cut(s) 1575, 1802
HpyAV CCTTC 5 cut(s) 494, 611, 926, 1544, 1606
HpyCH4III ACNGT 8 cut(s) 74, 910, 1077, 1130, 1178, 1270, 1388, 1480
HpyCH4IV ACGT 2 cut(s) 851, 977
HpyF10VI GCNNNNNNNGC 2 cut(s) 112, 1307
HpyF3I CTNAG 7 cut(s) 53, 656, 914, 1220, 1277, 1620, 1683
HpySE526I ACGT 2 cut(s) 851, 977
Hsp92II CATG 6 cut(s) 235, 403, 439, 757, 1231, 1546
HspAI GCGC 2 cut(s) 186, 1308
Ksp22I TGATCA 2 cut(s) 226, 864
KspI CCGCGG 1 cut(s) 1419
LmnI GCTCC 4 cut(s) 482, 750, 946, 1298
Lsp1109I GCAGC 2 cut(s) 665, 1297
LweI GCATC 7 cut(s) 2, 1076, 1233, 1348, 1427, 1449, 1659
MaeI CTAG 4 cut(s) 858, 1023, 1080, 1116
MaeII ACGT 2 cut(s) 851, 977
MaeIII GTNAC 3 cut(s) 847, 1153, 1193
MboII GAAGA 8 cut(s) 46, 54, 166, 169, 601, 613, 1005, 1013
MfeI CAATTG 1 cut(s) 16
MflI RGATCY 1 cut(s) 1672
MhlI GDGCHC 4 cut(s) 423, 487, 1285, 1303
MlsI TGGCCA 1 cut(s) 363
MluNI TGGCCA 1 cut(s) 363
MlyI GAGTC 2 cut(s) 553, 981
MmeI TCCRAC 3 cut(s) 685, 1650, 1821
Mox20I TGGCCA 1 cut(s) 363
Mph1103I ATGCAT 2 cut(s) 1442, 1652
MroXI GAANNNNTTC 2 cut(s) 173, 693
MscI TGGCCA 1 cut(s) 363
MseI TTAA 8 cut(s) 45, 318, 456, 477, 741, 1317, 1431, 1488
MslI CAYNNNNRTG 6 cut(s) 120, 369, 398, 440, 1319, 1356
Msp20I TGGCCA 1 cut(s) 363
MspA1I CMGCKG 2 cut(s) 152, 1418
MspI CCGG 1 cut(s) 1049
MspR9I CCNGG 1 cut(s) 1655
MssI GTTTAAAC 1 cut(s) 1432
MunI CAATTG 1 cut(s) 16
Mva1269I GAATGC 1 cut(s) 1652
MvaI CCWGG 1 cut(s) 1655
MvnI CGCG 5 cut(s) 101, 188, 1308, 1418, 1719
MwoI GCNNNNNNNGC 2 cut(s) 112, 1307
NlaIII CATG 6 cut(s) 235, 403, 439, 757, 1231, 1546
NlaIV GGNNCC 1 cut(s) 1674
NmuCI GTSAC 1 cut(s) 847
NsiI ATGCAT 2 cut(s) 1442, 1652
NspI RCATGY 1 cut(s) 757
NspV TTCGAA 2 cut(s) 514, 999
PcsI WCGNNNNNNNCGW 1 cut(s) 996
PctI GAATGC 1 cut(s) 1652
PdmI GAANNNNTTC 2 cut(s) 173, 693
Pfl23II CGTACG 1 cut(s) 1203
PfoI TCCNGGA 1 cut(s) 1653
PkrI GCNGC 4 cut(s) 100, 680, 789, 1312
PleI GAGTC 2 cut(s) 552, 981
PmeI GTTTAAAC 1 cut(s) 1432
PpsI GAGTC 2 cut(s) 552, 981
Ppu21I YACGTR 1 cut(s) 978
Psp124BI GAGCTC 1 cut(s) 487
Psp6I CCWGG 1 cut(s) 1653
PspGI CCWGG 1 cut(s) 1653
PspLI CGTACG 1 cut(s) 1203
PspN4I GGNNCC 1 cut(s) 1674
PsuI RGATCY 1 cut(s) 1672
PvuII CAGCTG 1 cut(s) 152
RsaI GTAC 3 cut(s) 980, 1205, 1218
RsaNI GTAC 3 cut(s) 979, 1204, 1217
RseI CAYNNNNRTG 6 cut(s) 120, 369, 398, 440, 1319, 1356
SacI GAGCTC 1 cut(s) 487
SacII CCGCGG 1 cut(s) 1419
SaqAI TTAA 8 cut(s) 45, 318, 456, 477, 741, 1317, 1431, 1488
SatI GCNGC 4 cut(s) 99, 679, 788, 1311
ScaI AGTACT 1 cut(s) 1218
SchI GAGTC 2 cut(s) 553, 981
ScrFI CCNGG 1 cut(s) 1655
SduI GDGCHC 4 cut(s) 423, 487, 1285, 1303
SfaNI GCATC 7 cut(s) 2, 1076, 1233, 1348, 1427, 1449, 1659
SfcI CTRYAG 2 cut(s) 268, 667
Sfr303I CCGCGG 1 cut(s) 1419
SfuI TTCGAA 2 cut(s) 514, 999
SgrBI CCGCGG 1 cut(s) 1419
SmiMI CAYNNNNRTG 6 cut(s) 120, 369, 398, 440, 1319, 1356
SpeI ACTAGT 2 cut(s) 857, 1022
SsiI CCGC 7 cut(s) 99, 765, 788, 797, 1416, 1418, 1719
SspI AATATT 1 cut(s) 351
SspMI CTAG 4 cut(s) 858, 1023, 1080, 1116
SstI GAGCTC 1 cut(s) 487
StyD4I CCNGG 1 cut(s) 1653
StyI CCWWGG 1 cut(s) 1115
TaaI ACNGT 8 cut(s) 74, 910, 1077, 1130, 1178, 1270, 1388, 1480
TaiI ACGT 2 cut(s) 854, 980
TatI WGTACW 1 cut(s) 1216
TauI GCSGC 2 cut(s) 101, 790
Tru1I TTAA 8 cut(s) 45, 318, 456, 477, 741, 1317, 1431, 1488
Tru9I TTAA 8 cut(s) 45, 318, 456, 477, 741, 1317, 1431, 1488
TscAI CASTG 1 cut(s) 400
TseFI GTSAC 1 cut(s) 847
TseI GCWGC 2 cut(s) 678, 1310
Tsp45I GTSAC 1 cut(s) 847
TspDTI ATGAA 6 cut(s) 452, 912, 1358, 1412, 1559, 1818
TspGWI ACGGA 2 cut(s) 497, 1588
TspRI CASTG 1 cut(s) 400
VneI GTGCAC 1 cut(s) 1281
XapI RAATTY 5 cut(s) 169, 492, 517, 1733, 1766
XceI RCATGY 1 cut(s) 757
XmaJI CCTAGG 1 cut(s) 1115
XmiI GTMKAC 4 cut(s) 92, 854, 1058, 1475
XmnI GAANNNNTTC 2 cut(s) 173, 693
XspI CTAG 4 cut(s) 858, 1023, 1080, 1116
ZrmI AGTACT 1 cut(s) 1218
Zsp2I ATGCAT 2 cut(s) 1442, 1652
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.