AT3G16380

polyadenylate-binding protein

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
3
Physical Location & Seq
Reverse (-)
5558445 .. 5561126
2682 bp
Loading structure...
UTR
Exon/CDS
Intron
AT3G16380.1

Sequence Viewer

Length: 1614 bp
ATGGCGCTCGTGAAAACGGAAACGCAGGCGTTAGGAAACCACCAGCATTCTTCAAGGTTTGGTTCGCTTTACGTCGGTGATCTTAGCCCAGACGTGACGGAGAAAGATCTCATTGATAAGTTCTCTTTGAATGTTCCGGTAGTGTCCGTTCATCTTTGCCGTAACTCTGTCACCGGAAAATCCATGTGTTACGCTTACATCAACTTCGATTCACCTTTCAGCGCATCGAATGCTATGACTCGCTTAAACCATAGTGATTTGAAGGGAAAGGCTATGCGAATAATGTGGTCTCAGAGGGATCTTGCGTACCGTCGTCGTACTCGTACTGGTTTTGCAAATCTATACGTAAAGAATCTGGATAGCTCGATTACTAGCAGTTGCTTAGAGCGAATGTTTTGCCCCTTTGGTTCCATACTTTCTTGCAAAGTCGTTGAAGAGAATGGCCAAAGTAAAGGTTTTGGCTTTGTTCAGTTTGATACAGAGCAATCTGCTGTATCTGCTCGTTCTGCTCTCCACGGCTCTATGGTTTATGGCAAGAAACTGTTTGTTGCCAAGTTCATCAACAAGGATGAAAGAGCAGCTATGGCAGGAAATCAAGACTCTACAAACGTTTATGTGAAGAATCTGATCGAAACTGTTACAGATGATTGTCTACATACACTGTTTTCTCAATATGGAACTGTCTCTAGTGTTGTGGTTATGAGGGATGGTATGGGAAGATCTAGAGGTTTCGGATTTGTTAACTTCTGCAATCCAGAAAATGCTAAGAAAGCTATGGAATCTCTCTGTGGACTACAACTTGGATCGAAGAAATTGTTTGTTGGTAAGGCACTCAAGAAAGATGAAAGGAGGGAGATGCTGAAACAGAAATTCAGTGACAACTTTATTGCAAAGCCTAACATGAGATGGTCCAATCTGTACGTGAAGAACTTGAGTGAATCAATGAATGAAACAAGACTGCGAGAAATCTTTGGATGCTATGGGCAAATAGTTTCAGCTAAAGTGATGTGTCATGAGAATGGCAGAAGTAAAGGATTCGGCTTTGTGTGCTTCTCTAACTGTGAAGAGTCCAAACAGGCTAAAAGATATCTCAATGGGTTCTTAGTTGATGGAAAGCCAATAGTTGTTCGAGTTGCAGAGCGCAAAGAGGATCGAATCAAGAGGTTGCAGCAATATTTTCAGGCACAGCCACGCCAGTACACGCAAGCTCCTTCTGCCCCTTCACCAGCTCAGCCAGTCCTCTCATATGTGTCCAGCTCATATGGTTGCTTTCAGCCATTCCAGGTCGGGACATCTTATTACTATATGGGCAATCAGGTGCCACAAATGTCCGGTCACCAAAACATCACCACCTACGTTCCAGCTGGGAAAGTGCCTCTCAAGGAGAGAAGATCAATGCATCTGGTCTACAAACATCCGGCTTATCCCGTTGCCAAGAGGGGTGCTAAACAGACACTGGTTTTTAAGGGTGAGGTTAACAGAAATTTAGAGGCTGCAACATGCTCCAAAGCAACAACATCTGAGGAGAACCGTAAAGAAGAACGAAGATTGACTTTGTCAGGAAAGTTGTCACCAGAAGTGAAGGTAGAGGAATCAGGAAAACAATTGCAATGA

Protein Analysis

537

Amino Acids

60.35

Weight (kDa)

9.56

Isoelectric Point (pI)

47.38

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 23 - 92 5.5e-13 RNA recognition motif
RRM_1 PF00076 114 - 181 1.2e-17 RNA recognition motif
RRM_1 PF00076 204 - 272 1.8e-18 RNA recognition motif
RRM_1 PF00076 306 - 374 1.3e-17 RNA recognition motif
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
Loading...
Style Settings
Image
Tree File
Tip: Beautify your tree with professional tools

Download the Full Tree (.nwk) file, then upload it to any of the following tools to customize colors, fonts, annotations, clades, and branch support.

Publication-ready

Orthologous Genes (Group: OG0019631)

Species Orthologous Gene IDs
arabidopsis_thaliana AT3G16380
malus_domestica MD09G1199800.v1.1 MD17G1180400.v1.1
prunus_persica Prupe.3G056300_v2.0.a1 Prupe.3G056300_v2.0.a1
pyrus_communis pycom09g11700 pycom17g18970

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 1318
AccI GTMKAC 2 cut(s) 652, 1407
AclI AACGTT 1 cut(s) 609
AclWI GGATC 3 cut(s) 306, 811, 1158
AcoI YGGCCR 1 cut(s) 442
AcsI RAATTY 2 cut(s) 869, 1483
AfaI GTAC 5 cut(s) 308, 319, 325, 920, 1199
AgsI TTSAA 4 cut(s) 54, 130, 262, 434
AjiI CACGTC 1 cut(s) 94
AjnI CCWGG 1 cut(s) 1281
AluBI AGCT 8 cut(s) 363, 581, 773, 998, 1208, 1229, 1257, 1364
AluI AGCT 8 cut(s) 363, 581, 773, 998, 1208, 1229, 1257, 1364
Alw26I GTCTC 2 cut(s) 294, 688
AlwI GGATC 3 cut(s) 306, 811, 1158
AlwNI CAGNNNCTG 1 cut(s) 1456
AoxI GGCC 1 cut(s) 442
ApeKI GCWGC 3 cut(s) 578, 1168, 1493
ApoI RAATTY 2 cut(s) 869, 1483
ArsI GACNNNNNNTTYG 2 cut(s) 1318, 1350
AspLEI GCGC 3 cut(s) 7, 224, 1143
AspS9I GGNCC 1 cut(s) 909
AsuHPI GGTGA 8 cut(s) 89, 163, 204, 1215, 1328, 1339, 1481, 1563
AvaII GGWCC 1 cut(s) 909
BalI TGGCCA 1 cut(s) 444
BanI GGYRCC 1 cut(s) 1318
BauI CACGAG 1 cut(s) 8
BbvI GCAGC 3 cut(s) 590, 1180, 1480
BccI CCATC 3 cut(s) 701, 900, 1103
BceAI ACGGC 2 cut(s) 144, 532
BcgI CGANNNNNNTGC 2 cut(s) 378, 412
BciT130I CCWGG 1 cut(s) 1283
BcoDI GTCTC 2 cut(s) 294, 688
BfaI CTAG 3 cut(s) 372, 687, 723
BfoI RGCGCY 1 cut(s) 8
BglII AGATCT 2 cut(s) 106, 719
BisI GCNGC 3 cut(s) 579, 1169, 1494
BlpI GCTNAGC 1 cut(s) 1230
BlsI GCNGC 3 cut(s) 580, 1170, 1495
Bme1390I CCNGG 1 cut(s) 1283
Bme18I GGWCC 1 cut(s) 909
BmgBI CACGTC 1 cut(s) 94
BmgT120I GGNCC 1 cut(s) 909
BmiI GGNNCC 2 cut(s) 409, 1320
BmrFI CCNGG 1 cut(s) 1283
BmsI GCATC 4 cut(s) 233, 846, 965, 1408
Bpu1102I GCTNAGC 1 cut(s) 1230
BpuEI CTTGAG 3 cut(s) 818, 952, 1364
BsaAI YACGTR 2 cut(s) 346, 922
BsaI GGTCTC 1 cut(s) 294
BsaJI CCNNGG 1 cut(s) 514
BsaWI WCCGGW 3 cut(s) 136, 173, 1331
BsaXI ACNNNNNCTCC 2 cut(s) 1192, 1222
Bse1I ACTGG 4 cut(s) 331, 1195, 1235, 1461
BseBI CCWGG 1 cut(s) 1283
BseDI CCNNGG 1 cut(s) 514
BseGI GGATG 4 cut(s) 574, 712, 980, 1414
BseMII CTCAG 3 cut(s) 305, 1244, 1512
BseNI ACTGG 4 cut(s) 331, 1195, 1235, 1461
BseRI GAGGAG 1 cut(s) 1538
BseXI GCAGC 3 cut(s) 590, 1180, 1480
BseYI CCCAGC 1 cut(s) 1364
BshFI GGCC 1 cut(s) 444
BshNI GGYRCC 1 cut(s) 1318
BsiSI CCGG 4 cut(s) 137, 174, 1332, 1418
BslFI GGGAC 1 cut(s) 1303
BsmAI GTCTC 2 cut(s) 294, 688
BsmFI GGGAC 1 cut(s) 1303
BsmI GAATGC 2 cut(s) 46, 235
BsnI GGCC 1 cut(s) 444
Bso31I GGTCTC 1 cut(s) 294
Bsp143I GATC 8 cut(s) 79, 106, 298, 627, 719, 803, 1150, 1391
Bsp1720I GCTNAGC 1 cut(s) 1230
BspANI GGCC 1 cut(s) 444
BspCNI CTCAG 3 cut(s) 304, 1243, 1513
BspHI TCATGA 1 cut(s) 1012
BspLI GGNNCC 2 cut(s) 409, 1320
BspPI GGATC 3 cut(s) 306, 811, 1158
BspT107I GGYRCC 1 cut(s) 1318
BspTNI GGTCTC 1 cut(s) 294
BsrI ACTGG 4 cut(s) 331, 1195, 1235, 1461
BssECI CCNNGG 1 cut(s) 514
BssMI GATC 8 cut(s) 79, 106, 298, 627, 719, 803, 1150, 1391
BssSI CACGAG 1 cut(s) 8
Bst2BI CACGAG 1 cut(s) 8
Bst2UI CCWGG 1 cut(s) 1283
Bst4CI ACNGT 7 cut(s) 311, 543, 637, 663, 682, 1061, 1532
Bst6I CTCTTC 2 cut(s) 429, 1059
BstAPI GCANNNNNTGC 1 cut(s) 230
BstBAI YACGTR 2 cut(s) 346, 922
BstC8I GCNNGC 2 cut(s) 27, 1206
BstDEI CTNAG 7 cut(s) 83, 291, 382, 765, 1102, 1230, 1521
BstDSI CCRYGG 1 cut(s) 514
BstEII GGTNACC 1 cut(s) 1334
BstF5I GGATG 4 cut(s) 574, 712, 980, 1414
BstH2I RGCGCY 1 cut(s) 8
BstHHI GCGC 3 cut(s) 7, 224, 1143
BstKTI GATC 8 cut(s) 82, 109, 301, 630, 722, 806, 1153, 1394
BstMAI GTCTC 2 cut(s) 294, 688
BstMBI GATC 8 cut(s) 79, 106, 298, 627, 719, 803, 1150, 1391
BstMWI GCNNNNNNNGC 7 cut(s) 230, 497, 506, 584, 770, 1047, 1214
BstNI CCWGG 1 cut(s) 1283
BstNSI RCATGY 1 cut(s) 1503
BstPI GGTNACC 1 cut(s) 1334
BstSCI CCNGG 1 cut(s) 1281
BstSNI TACGTA 1 cut(s) 346
BstV1I GCAGC 3 cut(s) 590, 1180, 1480
BstX2I RGATCY 3 cut(s) 106, 298, 719
BstYI RGATCY 3 cut(s) 106, 298, 719
BsuRI GGCC 1 cut(s) 444
BtgI CCRYGG 1 cut(s) 514
BtrI CACGTC 1 cut(s) 94
BtsCI GGATG 4 cut(s) 574, 712, 980, 1414
BtsIMutI CAGTG 3 cut(s) 659, 880, 1454
Cac8I GCNNGC 2 cut(s) 27, 1206
CaiI CAGNNNCTG 1 cut(s) 1456
CciI TCATGA 1 cut(s) 1012
CfoI GCGC 3 cut(s) 7, 224, 1143
Cfr13I GGNCC 1 cut(s) 909
Csp6I GTAC 5 cut(s) 307, 318, 324, 919, 1198
CviAII CATG 4 cut(s) 184, 901, 1013, 1500
CviQI GTAC 5 cut(s) 307, 318, 324, 919, 1198
DdeI CTNAG 7 cut(s) 83, 291, 382, 765, 1102, 1230, 1521
DpnI GATC 8 cut(s) 81, 108, 300, 629, 721, 805, 1152, 1393
DpnII GATC 8 cut(s) 79, 106, 298, 627, 719, 803, 1150, 1391
EaeI YGGCCR 1 cut(s) 442
Eam1104I CTCTTC 2 cut(s) 429, 1059
EarI CTCTTC 2 cut(s) 429, 1059
Eco105I TACGTA 1 cut(s) 346
Eco31I GGTCTC 1 cut(s) 294
Eco32I GATATC 1 cut(s) 1088
Eco47I GGWCC 1 cut(s) 909
Eco91I GGTNACC 1 cut(s) 1334
EcoO65I GGTNACC 1 cut(s) 1334
EcoRII CCWGG 1 cut(s) 1281
EcoRV GATATC 1 cut(s) 1088
EcoT22I ATGCAT 1 cut(s) 1401
FaeI CATG 4 cut(s) 187, 904, 1016, 1503
FalI AAGNNNNNCTT 2 cut(s) 1537, 1569
FaqI GGGAC 1 cut(s) 1303
FatI CATG 4 cut(s) 183, 900, 1012, 1499
FauNDI CATATG 2 cut(s) 1246, 1261
FblI GTMKAC 2 cut(s) 652, 1407
Fnu4HI GCNGC 3 cut(s) 579, 1169, 1494
FokI GGATG 4 cut(s) 581, 719, 987, 1401
Fsp4HI GCNGC 3 cut(s) 579, 1169, 1494
FspBI CTAG 3 cut(s) 372, 687, 723
GlaI GCGC 3 cut(s) 6, 223, 1142
GluI GCNGC 3 cut(s) 579, 1169, 1494
GsaI CCCAGC 1 cut(s) 1368
HaeII RGCGCY 1 cut(s) 8
HaeIII GGCC 1 cut(s) 444
HapII CCGG 4 cut(s) 137, 174, 1332, 1418
HhaI GCGC 3 cut(s) 7, 224, 1143
Hin1II CATG 4 cut(s) 187, 904, 1016, 1503
Hin6I GCGC 3 cut(s) 5, 222, 1141
HinP1I GCGC 3 cut(s) 5, 222, 1141
HincII GTYRAC 2 cut(s) 742, 1477
HindII GTYRAC 2 cut(s) 742, 1477
HpaI GTTAAC 2 cut(s) 742, 1477
HpaII CCGG 4 cut(s) 137, 174, 1332, 1418
HphI GGTGA 8 cut(s) 89, 163, 204, 1215, 1328, 1339, 1481, 1563
Hpy166II GTNNAC 6 cut(s) 653, 742, 791, 1200, 1408, 1477
Hpy188I TCNGA 4 cut(s) 294, 627, 734, 1522
Hpy8I GTNNAC 6 cut(s) 653, 742, 791, 1200, 1408, 1477
Hpy99I CGWCG 3 cut(s) 77, 315, 318
HpyAV CCTTC 4 cut(s) 256, 1221, 1230, 1576
HpyCH4III ACNGT 7 cut(s) 311, 543, 637, 663, 682, 1061, 1532
HpyCH4IV ACGT 6 cut(s) 72, 93, 345, 609, 921, 1356
HpyCH4V TGCA 9 cut(s) 335, 423, 750, 890, 1136, 1168, 1399, 1496, 1609
HpyF10VI GCNNNNNNNGC 7 cut(s) 230, 497, 506, 584, 770, 1047, 1214
HpyF3I CTNAG 7 cut(s) 83, 291, 382, 765, 1102, 1230, 1521
HpySE526I ACGT 6 cut(s) 72, 93, 345, 609, 921, 1356
Hsp92II CATG 4 cut(s) 187, 904, 1016, 1503
HspAI GCGC 3 cut(s) 5, 222, 1141
KspAI GTTAAC 2 cut(s) 742, 1477
Kzo9I GATC 8 cut(s) 79, 106, 298, 627, 719, 803, 1150, 1391
LmnI GCTCC 2 cut(s) 1213, 1508
Lsp1109I GCAGC 3 cut(s) 590, 1180, 1480
LweI GCATC 4 cut(s) 233, 846, 965, 1408
MaeI CTAG 3 cut(s) 372, 687, 723
MaeII ACGT 6 cut(s) 72, 93, 345, 609, 921, 1356
MaeIII GTNAC 8 cut(s) 94, 161, 169, 188, 637, 875, 1334, 1569
MalI GATC 8 cut(s) 81, 108, 300, 629, 721, 805, 1152, 1393
MboI GATC 8 cut(s) 79, 106, 298, 627, 719, 803, 1150, 1391
MfeI CAATTG 1 cut(s) 1604
MflI RGATCY 3 cut(s) 106, 298, 719
MlsI TGGCCA 1 cut(s) 444
MluCI AATT 4 cut(s) 812, 869, 1483, 1604
MluNI TGGCCA 1 cut(s) 444
MlyI GAGTC 3 cut(s) 232, 593, 1076
Mox20I TGGCCA 1 cut(s) 444
Mph1103I ATGCAT 1 cut(s) 1401
MscI TGGCCA 1 cut(s) 444
MseI TTAA 4 cut(s) 245, 741, 1464, 1476
MslI CAYNNNNRTG 1 cut(s) 1017
Msp20I TGGCCA 1 cut(s) 444
MspA1I CMGCKG 1 cut(s) 1364
MspI CCGG 4 cut(s) 137, 174, 1332, 1418
MspR9I CCNGG 1 cut(s) 1283
MunI CAATTG 1 cut(s) 1604
Mva1269I GAATGC 2 cut(s) 46, 235
MvaI CCWGG 1 cut(s) 1283
MwoI GCNNNNNNNGC 7 cut(s) 230, 497, 506, 584, 770, 1047, 1214
NdeI CATATG 2 cut(s) 1246, 1261
NdeII GATC 8 cut(s) 79, 106, 298, 627, 719, 803, 1150, 1391
NlaIII CATG 4 cut(s) 187, 904, 1016, 1503
NlaIV GGNNCC 2 cut(s) 409, 1320
NmuCI GTSAC 5 cut(s) 94, 169, 875, 1334, 1569
NsiI ATGCAT 1 cut(s) 1401
NspI RCATGY 1 cut(s) 1503
PagI TCATGA 1 cut(s) 1012
PcsI WCGNNNNNNNCGW 1 cut(s) 319
PctI GAATGC 2 cut(s) 46, 235
PfeI GAWTC 8 cut(s) 209, 352, 622, 779, 938, 1035, 1155, 1592
PflFI GACNNNGTC 1 cut(s) 1555
PkrI GCNGC 3 cut(s) 580, 1170, 1495
PleI GAGTC 3 cut(s) 232, 593, 1075
PpsI GAGTC 3 cut(s) 232, 593, 1075
Ppu21I YACGTR 2 cut(s) 346, 922
Psp1406I AACGTT 1 cut(s) 609
Psp6I CCWGG 1 cut(s) 1281
PspEI GGTNACC 1 cut(s) 1334
PspFI CCCAGC 1 cut(s) 1364
PspGI CCWGG 1 cut(s) 1281
PspN4I GGNNCC 2 cut(s) 409, 1320
PspPI GGNCC 1 cut(s) 909
PsrI GAACNNNNNNTAC 2 cut(s) 132, 164
PstNI CAGNNNCTG 1 cut(s) 1456
PsuI RGATCY 3 cut(s) 106, 298, 719
PsyI GACNNNGTC 1 cut(s) 1555
PvuII CAGCTG 1 cut(s) 1364
RsaI GTAC 5 cut(s) 308, 319, 325, 920, 1199
RsaNI GTAC 5 cut(s) 307, 318, 324, 919, 1198
RseI CAYNNNNRTG 1 cut(s) 1017
SaqAI TTAA 4 cut(s) 245, 741, 1464, 1476
SatI GCNGC 3 cut(s) 579, 1169, 1494
Sau3AI GATC 8 cut(s) 79, 106, 298, 627, 719, 803, 1150, 1391
Sau96I GGNCC 1 cut(s) 909
SchI GAGTC 3 cut(s) 232, 593, 1076
ScrFI CCNGG 1 cut(s) 1283
SfaNI GCATC 4 cut(s) 233, 846, 965, 1408
SinI GGWCC 1 cut(s) 909
SmiMI CAYNNNNRTG 1 cut(s) 1017
SmlI CTYRAG 3 cut(s) 833, 931, 1379
SmoI CTYRAG 3 cut(s) 833, 931, 1379
SnaBI TACGTA 1 cut(s) 346
Sse9I AATT 4 cut(s) 812, 869, 1483, 1604
SspI AATATT 1 cut(s) 1175
SspMI CTAG 3 cut(s) 372, 687, 723
StyD4I CCNGG 1 cut(s) 1281
TaaI ACNGT 7 cut(s) 311, 543, 637, 663, 682, 1061, 1532
TaiI ACGT 6 cut(s) 75, 96, 348, 612, 924, 1359
TaqI TCGA 7 cut(s) 207, 227, 365, 630, 806, 1129, 1153
TasI AATT 4 cut(s) 812, 869, 1483, 1604
TatI WGTACW 1 cut(s) 1197
TfiI GAWTC 8 cut(s) 209, 352, 622, 779, 938, 1035, 1155, 1592
Tru1I TTAA 4 cut(s) 245, 741, 1464, 1476
Tru9I TTAA 4 cut(s) 245, 741, 1464, 1476
TscAI CASTG 3 cut(s) 666, 880, 1461
TseFI GTSAC 5 cut(s) 94, 169, 875, 1334, 1569
TseI GCWGC 3 cut(s) 578, 1168, 1493
Tsp45I GTSAC 5 cut(s) 94, 169, 875, 1334, 1569
TspDTI ATGAA 6 cut(s) 140, 547, 585, 858, 959, 963
TspGWI ACGGA 3 cut(s) 32, 113, 136
TspRI CASTG 3 cut(s) 666, 880, 1461
Tth111I GACNNNGTC 1 cut(s) 1555
VpaK11BI GGWCC 1 cut(s) 909
XapI RAATTY 2 cut(s) 869, 1483
XbaI TCTAGA 1 cut(s) 722
XceI RCATGY 1 cut(s) 1503
XmiI GTMKAC 2 cut(s) 652, 1407
XspI CTAG 3 cut(s) 372, 687, 723
Zsp2I ATGCAT 1 cut(s) 1401
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.