AT1G29780

Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
arabidopsis_thaliana
1
OG0006661
Physical Location & Seq
Forward (+)
10426950 .. 10427615
666 bp
Loading structure...
UTR
Exon/CDS
Intron
AT1G29780.1

Sequence Viewer

Length: 666 bp
ATGTCCATCTTGAAGTTTCATTGTCGCCTTCTGCGTTGTGTTTCCAGGTGCTTCACGGGCATCACCATCAGCTATCCAGCCACAAAACATGGCTATACAAAATTTGAGAAACTCGAGGACCCTCTGACAGGATATACCAACATGAAAAGGACAATCATCCTCGATCTTGATGAAACGTTGGTTCACGCAACAACACATCTTCCGGGAGTTAAACATGATTTCATGGTGATGGTGAAAATGGAAAGGGAGATAATGCCAATCTTTGTGGTGAAACGTCCTGGTGTGACTGAATTCTTGGAAAGACTTGGTGAAAACTACAAAGTGGTAGTTTTCACAGCTGGTCTGGAAGAATATGCTTCACAGGTTTTGGACAAGCTAGACAAGAACGGTGTGATCTCACAGCGGCTATATCGAGACTCATGCACGGAGGTGAACGGGAAATATGTAAAGGACTTATCTTTGGTAGTGGGGAAAGACCTCAGAAGTGCTTTGATTGTCGATGACAATCCATCTTCTTACTCATTACAGCCAGAGAATGGAGTGCCTATAAAGGCTTTTGTGGATGACCTGAAAGATCAAGAACTGTTGAATCTTGTGGAGTTTCTCGAAAGCTGTTACGCATATGAAGATATGAGGGATGCAGTCACGGATTTGCTCGCAAACTAG

Protein Analysis

221

Amino Acids

25.18

Weight (kDa)

5.44

Isoelectric Point (pI)

34.3

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NIF PF03031 51 - 212 4.7e-53 NLI interacting factor-like phosphatase
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)
AccB7I CCANNNNNTGG 1 cut(s) 536
AciI CCGC 1 cut(s) 403
AclI AACGTT 1 cut(s) 176
AcsI RAATTY 2 cut(s) 101, 290
AfiI CCNNNNNNNGG 2 cut(s) 128, 536
AgsI TTSAA 2 cut(s) 13, 589
AjnI CCWGG 2 cut(s) 44, 277
AleI CACNNNNGTG 1 cut(s) 428
AluBI AGCT 4 cut(s) 72, 338, 376, 612
AluI AGCT 4 cut(s) 72, 338, 376, 612
Alw26I GTCTC 1 cut(s) 408
Ama87I CYCGRG 1 cut(s) 113
ApoI RAATTY 2 cut(s) 101, 290
AspS9I GGNCC 1 cut(s) 118
AsuC2I CCSGG 1 cut(s) 204
AsuHPI GGTGA 6 cut(s) 55, 238, 244, 280, 320, 442
AvaI CYCGRG 1 cut(s) 113
AvaII GGWCC 1 cut(s) 118
BccI CCATC 4 cut(s) 14, 74, 223, 517
BcgI CGANNNNNNTGC 2 cut(s) 402, 436
BciT130I CCWGG 2 cut(s) 46, 279
BcnI CCSGG 1 cut(s) 204
BcoDI GTCTC 1 cut(s) 408
BfaI CTAG 2 cut(s) 377, 664
BisI GCNGC 1 cut(s) 404
BlsI GCNGC 1 cut(s) 405
Bme1390I CCNGG 3 cut(s) 46, 204, 279
Bme18I GGWCC 1 cut(s) 118
BmeT110I CYCGRG 1 cut(s) 113
BmgT120I GGNCC 1 cut(s) 118
BmiI GGNNCC 1 cut(s) 120
BmrFI CCNGG 3 cut(s) 46, 204, 279
BmsI GCATC 2 cut(s) 69, 628
BpuMI CCSGG 1 cut(s) 204
BsaBI GATNNNNATC 1 cut(s) 504
Bsc4I CCNNNNNNNGG 2 cut(s) 128, 536
Bse8I GATNNNNATC 1 cut(s) 504
BseBI CCWGG 2 cut(s) 46, 279
BseGI GGATG 3 cut(s) 156, 568, 643
BseJI GATNNNNATC 1 cut(s) 504
BseLI CCNNNNNNNGG 2 cut(s) 128, 536
BseMII CTCAG 1 cut(s) 493
BsiHKCI CYCGRG 1 cut(s) 113
BsiSI CCGG 1 cut(s) 203
BslI CCNNNNNNNGG 2 cut(s) 128, 536
BsmAI GTCTC 1 cut(s) 408
BsoBI CYCGRG 1 cut(s) 113
Bsp143I GATC 3 cut(s) 163, 393, 574
BspACI CCGC 1 cut(s) 403
BspCNI CTCAG 1 cut(s) 492
BspLI GGNNCC 1 cut(s) 120
BssMI GATC 3 cut(s) 163, 393, 574
Bst2UI CCWGG 2 cut(s) 46, 279
Bst4CI ACNGT 2 cut(s) 389, 585
BstC8I GCNNGC 1 cut(s) 657
BstDEI CTNAG 1 cut(s) 479
BstENI CCTNNNNNAGG 1 cut(s) 126
BstF5I GGATG 3 cut(s) 156, 568, 643
BstKTI GATC 3 cut(s) 166, 396, 577
BstMAI GTCTC 1 cut(s) 408
BstMBI GATC 3 cut(s) 163, 393, 574
BstMWI GCNNNNNNNGC 1 cut(s) 57
BstNI CCWGG 2 cut(s) 46, 279
BstSCI CCNGG 3 cut(s) 44, 202, 277
BtsCI GGATG 3 cut(s) 156, 568, 643
Cac8I GCNNGC 1 cut(s) 657
Cfr13I GGNCC 1 cut(s) 118
CspCI CAANNNNNGTGG 2 cut(s) 246, 281
CviAII CATG 5 cut(s) 89, 142, 215, 223, 420
CviJI RGCY 9 cut(s) 72, 80, 93, 338, 376, 406, 529, 554, 612
CviKI_1 RGCY 9 cut(s) 72, 80, 93, 338, 376, 406, 529, 554, 612
DdeI CTNAG 1 cut(s) 479
DpnI GATC 3 cut(s) 165, 395, 576
DpnII GATC 3 cut(s) 163, 393, 574
Eco47I GGWCC 1 cut(s) 118
Eco88I CYCGRG 1 cut(s) 113
EcoNI CCTNNNNNAGG 1 cut(s) 126
EcoO109I RGGNCCY 1 cut(s) 118
EcoRI GAATTC 1 cut(s) 290
EcoRII CCWGG 2 cut(s) 44, 277
FaeI CATG 5 cut(s) 92, 145, 218, 226, 423
FatI CATG 5 cut(s) 88, 141, 214, 222, 419
FauNDI CATATG 1 cut(s) 622
Fnu4HI GCNGC 1 cut(s) 404
FokI GGATG 3 cut(s) 143, 575, 650
Fsp4HI GCNGC 1 cut(s) 404
FspBI CTAG 2 cut(s) 377, 664
GluI GCNGC 1 cut(s) 404
HapII CCGG 1 cut(s) 203
Hin1II CATG 5 cut(s) 92, 145, 218, 226, 423
HinfI GANTC 2 cut(s) 416, 589
HpaII CCGG 1 cut(s) 203
HphI GGTGA 6 cut(s) 55, 238, 244, 280, 320, 442
Hpy166II GTNNAC 2 cut(s) 184, 433
Hpy188I TCNGA 2 cut(s) 126, 482
Hpy188III TCNNGA 6 cut(s) 10, 167, 344, 413, 578, 605
Hpy8I GTNNAC 2 cut(s) 184, 433
HpyAV CCTTC 1 cut(s) 38
HpyCH4III ACNGT 2 cut(s) 389, 585
HpyCH4IV ACGT 2 cut(s) 176, 274
HpyCH4V TGCA 2 cut(s) 423, 641
HpyF10VI GCNNNNNNNGC 1 cut(s) 57
HpyF3I CTNAG 1 cut(s) 479
HpySE526I ACGT 2 cut(s) 176, 274
Hsp92II CATG 5 cut(s) 92, 145, 218, 226, 423
Kzo9I GATC 3 cut(s) 163, 393, 574
LweI GCATC 2 cut(s) 69, 628
MaeI CTAG 2 cut(s) 377, 664
MaeII ACGT 2 cut(s) 176, 274
MaeIII GTNAC 3 cut(s) 283, 614, 643
MalI GATC 3 cut(s) 165, 395, 576
MboI GATC 3 cut(s) 163, 393, 574
MboII GAAGA 4 cut(s) 191, 359, 504, 638
MluCI AATT 2 cut(s) 101, 290
MlyI GAGTC 1 cut(s) 410
MnlI CCTC 6 cut(s) 109, 132, 170, 421, 488, 627
MseI TTAA 1 cut(s) 210
MslI CAYNNNNRTG 2 cut(s) 227, 428
MspA1I CMGCKG 2 cut(s) 338, 403
MspI CCGG 1 cut(s) 203
MspR9I CCNGG 3 cut(s) 46, 204, 279
MvaI CCWGG 2 cut(s) 46, 279
MwoI GCNNNNNNNGC 1 cut(s) 57
NciI CCSGG 1 cut(s) 204
NdeI CATATG 1 cut(s) 622
NdeII GATC 3 cut(s) 163, 393, 574
NlaIII CATG 5 cut(s) 92, 145, 218, 226, 423
NlaIV GGNNCC 1 cut(s) 120
NmuCI GTSAC 2 cut(s) 283, 643
OliI CACNNNNGTG 1 cut(s) 428
PaeR7I CTCGAG 1 cut(s) 113
PcsI WCGNNNNNNNCGW 1 cut(s) 31
PfeI GAWTC 1 cut(s) 589
PflMI CCANNNNNTGG 1 cut(s) 536
PfoI TCCNGGA 1 cut(s) 202
PkrI GCNGC 1 cut(s) 405
PleI GAGTC 1 cut(s) 410
PpsI GAGTC 1 cut(s) 410
PpuMI RGGWCCY 1 cut(s) 118
Psp1406I AACGTT 1 cut(s) 176
Psp5II RGGWCCY 1 cut(s) 118
Psp6I CCWGG 2 cut(s) 44, 277
PspGI CCWGG 2 cut(s) 44, 277
PspN4I GGNNCC 1 cut(s) 120
PspPI GGNCC 1 cut(s) 118
PspPPI RGGWCCY 1 cut(s) 118
PspXI VCTCGAGB 1 cut(s) 113
PvuII CAGCTG 1 cut(s) 338
RseI CAYNNNNRTG 2 cut(s) 227, 428
SaqAI TTAA 1 cut(s) 210
SatI GCNGC 1 cut(s) 404
Sau3AI GATC 3 cut(s) 163, 393, 574
Sau96I GGNCC 1 cut(s) 118
SchI GAGTC 1 cut(s) 410
ScrFI CCNGG 3 cut(s) 46, 204, 279
SfaNI GCATC 2 cut(s) 69, 628
Sfr274I CTCGAG 1 cut(s) 113
SinI GGWCC 1 cut(s) 118
SlaI CTCGAG 1 cut(s) 113
SmiMI CAYNNNNRTG 2 cut(s) 227, 428
SmlI CTYRAG 1 cut(s) 113
SmoI CTYRAG 1 cut(s) 113
Sse9I AATT 2 cut(s) 101, 290
SsiI CCGC 1 cut(s) 403
SspMI CTAG 2 cut(s) 377, 664
StyD4I CCNGG 3 cut(s) 44, 202, 277
TaaI ACNGT 2 cut(s) 389, 585
TaiI ACGT 2 cut(s) 179, 277
TaqI TCGA 5 cut(s) 114, 162, 412, 498, 606
TasI AATT 2 cut(s) 101, 290
TauI GCSGC 1 cut(s) 406
TfiI GAWTC 1 cut(s) 589
Tru1I TTAA 1 cut(s) 210
Tru9I TTAA 1 cut(s) 210
TseFI GTSAC 2 cut(s) 283, 643
Tsp45I GTSAC 2 cut(s) 283, 643
TspDTI ATGAA 5 cut(s) 8, 158, 186, 211, 639
TspGWI ACGGA 2 cut(s) 440, 662
Van91I CCANNNNNTGG 1 cut(s) 536
VpaK11BI GGWCC 1 cut(s) 118
XagI CCTNNNNNAGG 1 cut(s) 126
XapI RAATTY 2 cut(s) 101, 290
XhoI CTCGAG 1 cut(s) 113
XspI CTAG 2 cut(s) 377, 664
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.