RLG00000027062

Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr6
OG0002737
Physical Location & Seq
Forward (+)
8077371 .. 8080546
3176 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000027062

Sequence Viewer

Length: 954 bp
ATGTGTGCGTTTGGCTCCGATCTCTGGAGACGTCGATCATCGAAGGCTGGCCGGATTGCTGGCACCGCTTCAAGAACTCGCCCACTGATCCCAAGGGCGCTTGAATTAGAATTAGAAGGTGTAAAGCCTACAACATTTGAGTGGAAGGCTTTGCTCAACTGGTTGGGATTCTTCTTCCAGATCTTCATTCAAATCGCCAGAGCTCTCGGCCACCATCCGTTACTCTGTTCTTCTTCGTCTTTATCGTCTTCTTCTGCTCCCGAGGCTTCCTTCAAATCGTTGCCGGCTGTCGAGTTGCCCGAGCACGACTCTTCAGCCGTTGAAATCGATACTTCCGATTCTGACTCCGACTCTCACATAGTTTTCGGACGCAAGCGCCAGAAGGTGGGTTGGACGTGGTTTGAGCTCGAGTGTATTTCTTCGGACAAGGAATGCAATGGGAAACTGAAGTTGAATTATGTTACGGTTTTTGAGCGTCCGGCCGGGGCTGCAGAGTTCTTGAAACAAGTGCATGGGTTTGCCGATCTTGTGTTGTTTACTGCTGGACTTGAAGGTTATGCTAGACCACTTGTTGACAGATTAGACGTAGAGAACCTGTTCAGTTTTAGGCTTTATCGGCCTTCAACAACCAGCATGGAATACTGTGAGCATGTCAAGGATCTCTCTGGCCTATCAAAGGGTATGGGACAAATTGTTATTGATGACAACAACCCTTTCAGTTTCTTGTTGCAACCTTTGAATGGAATTCCATGCATTCCATTTTCTGCTGGGCAAATACATGACACACAGCTTTTGGATGTTCTTCTTGCACTGCTCAAGCACCTATCACTGCAGAAAGACATGAGACCTGCACTTTATGAGAGGTTTCACATGCCCGAATGGTTTCAAAAGCAGAAGAAGAGGTGCTGGGTTGATTGTGACGATCAGAGATGCTTTTCCTCTAATACCAGGTAA

Protein Analysis

318

Amino Acids

35.88

Weight (kDa)

6.75

Isoelectric Point (pI)

36.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NIF PF03031 153 - 282 1.4e-25 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)
AatII GACGTC 1 cut(s) 34
Acc36I ACCTGC 1 cut(s) 856
AccB1I GGYRCC 1 cut(s) 62
AccB7I CCANNNNNTGG 1 cut(s) 385
AciI CCGC 1 cut(s) 66
AclWI GGATC 2 cut(s) 82, 666
AcoI YGGCCR 3 cut(s) 49, 208, 480
AcsI RAATTY 1 cut(s) 744
AcuI CTGAAG 2 cut(s) 297, 467
AcyI GRCGYC 1 cut(s) 31
AfiI CCNNNNNNNGG 4 cut(s) 24, 385, 676, 740
AjiI CACGTC 1 cut(s) 396
AjnI CCWGG 1 cut(s) 947
AluBI AGCT 3 cut(s) 203, 406, 790
AluI AGCT 3 cut(s) 203, 406, 790
Alw21I GWGCWC 3 cut(s) 205, 306, 408
Alw26I GTCTC 2 cut(s) 22, 838
AlwI GGATC 2 cut(s) 82, 666
Ama87I CYCGRG 3 cut(s) 260, 299, 407
AoxI GGCC 5 cut(s) 49, 208, 480, 617, 667
ApeKI GCWGC 1 cut(s) 488
ApoI RAATTY 1 cut(s) 744
Asp700I GAANNNNTTC 2 cut(s) 596, 882
AspLEI GCGC 2 cut(s) 100, 378
AsuC2I CCSGG 1 cut(s) 484
AvaI CYCGRG 3 cut(s) 260, 299, 407
BanI GGYRCC 1 cut(s) 62
BanII GRGCYC 2 cut(s) 205, 408
BbsI GAAGAC 1 cut(s) 240
Bbv12I GWGCWC 3 cut(s) 205, 306, 408
BbvI GCAGC 1 cut(s) 475
BccI CCATC 1 cut(s) 222
BceAI ACGGC 1 cut(s) 302
BciT130I CCWGG 1 cut(s) 949
BcnI CCSGG 1 cut(s) 484
BcoDI GTCTC 2 cut(s) 22, 838
BfaI CTAG 1 cut(s) 561
BfmI CTRYAG 2 cut(s) 489, 830
BfoI RGCGCY 2 cut(s) 101, 379
BfuAI ACCTGC 1 cut(s) 856
BglII AGATCT 1 cut(s) 180
BisI GCNGC 1 cut(s) 489
BlsI GCNGC 1 cut(s) 490
Bme1390I CCNGG 2 cut(s) 484, 949
BmeT110I CYCGRG 3 cut(s) 260, 299, 407
BmgBI CACGTC 1 cut(s) 396
BmiI GGNNCC 2 cut(s) 16, 64
BmrFI CCNGG 2 cut(s) 484, 949
BmsI GCATC 1 cut(s) 920
BpiI GAAGAC 1 cut(s) 240
BplI GAGNNNNNCTC 2 cut(s) 293, 325
BpmI CTGGAG 1 cut(s) 46
BpuEI CTTGAG 1 cut(s) 800
BpuMI CCSGG 1 cut(s) 484
Bsa29I ATCGAT 1 cut(s) 327
BsaHI GRCGYC 1 cut(s) 31
BsaI GGTCTC 1 cut(s) 838
BsaJI CCNNGG 3 cut(s) 92, 261, 483
Bsc4I CCNNNNNNNGG 4 cut(s) 24, 385, 676, 740
Bse118I RCCGGY 1 cut(s) 283
Bse1I ACTGG 1 cut(s) 164
Bse3DI GCAATG 1 cut(s) 442
BseBI CCWGG 1 cut(s) 949
BseCI ATCGAT 1 cut(s) 327
BseDI CCNNGG 3 cut(s) 92, 261, 483
BseGI GGATG 2 cut(s) 214, 802
BseLI CCNNNNNNNGG 4 cut(s) 24, 385, 676, 740
BseMI GCAATG 1 cut(s) 442
BseNI ACTGG 1 cut(s) 164
BseX3I CGGCCG 1 cut(s) 480
BseXI GCAGC 1 cut(s) 475
BseYI CCCAGC 2 cut(s) 767, 906
BsgI GTGCAG 1 cut(s) 834
Bsh1285I CGRYCG 1 cut(s) 483
BshFI GGCC 5 cut(s) 51, 210, 482, 619, 669
BshNI GGYRCC 1 cut(s) 62
BshVI ATCGAT 1 cut(s) 327
BsiEI CGRYCG 1 cut(s) 483
BsiHKAI GWGCWC 3 cut(s) 205, 306, 408
BsiHKCI CYCGRG 3 cut(s) 260, 299, 407
BsiSI CCGG 4 cut(s) 52, 284, 479, 483
BslFI GGGAC 1 cut(s) 699
BslI CCNNNNNNNGG 4 cut(s) 24, 385, 676, 740
BsmAI GTCTC 2 cut(s) 22, 838
BsmBI CGTCTC 1 cut(s) 22
BsmFI GGGAC 1 cut(s) 699
BsmI GAATGC 2 cut(s) 437, 753
BsnI GGCC 5 cut(s) 51, 210, 482, 619, 669
Bso31I GGTCTC 1 cut(s) 838
BsoBI CYCGRG 3 cut(s) 260, 299, 407
Bsp1286I GDGCHC 3 cut(s) 205, 306, 408
Bsp143I GATC 7 cut(s) 19, 35, 87, 180, 523, 658, 922
BspACI CCGC 1 cut(s) 66
BspANI GGCC 5 cut(s) 51, 210, 482, 619, 669
BspDI ATCGAT 1 cut(s) 327
BspLI GGNNCC 2 cut(s) 16, 64
BspMAI CTGCAG 2 cut(s) 493, 834
BspMI ACCTGC 1 cut(s) 856
BspPI GGATC 2 cut(s) 82, 666
BspT107I GGYRCC 1 cut(s) 62
BspTNI GGTCTC 1 cut(s) 838
BsrDI GCAATG 1 cut(s) 442
BsrFI RCCGGY 1 cut(s) 283
BsrI ACTGG 1 cut(s) 164
BssAI RCCGGY 1 cut(s) 283
BssECI CCNNGG 3 cut(s) 92, 261, 483
BssMI GATC 7 cut(s) 19, 35, 87, 180, 523, 658, 922
BssNI GRCGYC 1 cut(s) 31
BssT1I CCWWGG 1 cut(s) 92
Bst2UI CCWGG 1 cut(s) 949
Bst4CI ACNGT 2 cut(s) 466, 644
Bst6I CTCTTC 2 cut(s) 316, 893
BstACI GRCGYC 1 cut(s) 31
BstC8I GCNNGC 4 cut(s) 49, 61, 285, 374
BstENI CCTNNNNNAGG 1 cut(s) 674
BstF5I GGATG 2 cut(s) 214, 802
BstH2I RGCGCY 2 cut(s) 101, 379
BstHHI GCGC 2 cut(s) 100, 378
BstKTI GATC 7 cut(s) 22, 38, 90, 183, 526, 661, 925
BstMAI GTCTC 2 cut(s) 22, 838
BstMBI GATC 7 cut(s) 19, 35, 87, 180, 523, 658, 922
BstMCI CGRYCG 1 cut(s) 483
BstMWI GCNNNNNNNGC 4 cut(s) 65, 263, 488, 616
BstNI CCWGG 1 cut(s) 949
BstNSI RCATGY 2 cut(s) 653, 874
BstSCI CCNGG 2 cut(s) 482, 947
BstSFI CTRYAG 2 cut(s) 489, 830
BstV1I GCAGC 1 cut(s) 475
BstV2I GAAGAC 1 cut(s) 240
BstX2I RGATCY 2 cut(s) 180, 658
BstYI RGATCY 2 cut(s) 180, 658
BstZI CGGCCG 1 cut(s) 480
Bsu15I ATCGAT 1 cut(s) 327
BsuRI GGCC 5 cut(s) 51, 210, 482, 619, 669
BsuTUI ATCGAT 1 cut(s) 327
BtrI CACGTC 1 cut(s) 396
BtsCI GGATG 2 cut(s) 214, 802
BtsI GCAGTG 2 cut(s) 809, 827
BtsIMutI CAGTG 3 cut(s) 83, 809, 827
BveI ACCTGC 1 cut(s) 856
Cac8I GCNNGC 4 cut(s) 49, 61, 285, 374
CfoI GCGC 2 cut(s) 100, 378
Cfr10I RCCGGY 1 cut(s) 283
ClaI ATCGAT 1 cut(s) 327
CseI GACGC 2 cut(s) 378, 464
CsiI ACCWGGT 1 cut(s) 947
CviAII CATG 7 cut(s) 512, 634, 650, 750, 779, 841, 871
DpnI GATC 7 cut(s) 21, 37, 89, 182, 525, 660, 924
DpnII GATC 7 cut(s) 19, 35, 87, 180, 523, 658, 922
EaeI YGGCCR 3 cut(s) 49, 208, 480
EagI CGGCCG 1 cut(s) 480
Eam1104I CTCTTC 2 cut(s) 316, 893
EarI CTCTTC 2 cut(s) 316, 893
Ecl136II GAGCTC 2 cut(s) 203, 406
EclXI CGGCCG 1 cut(s) 480
Eco130I CCWWGG 1 cut(s) 92
Eco24I GRGCYC 2 cut(s) 205, 408
Eco31I GGTCTC 1 cut(s) 838
Eco52I CGGCCG 1 cut(s) 480
Eco53kI GAGCTC 2 cut(s) 203, 406
Eco57I CTGAAG 2 cut(s) 297, 467
Eco88I CYCGRG 3 cut(s) 260, 299, 407
EcoICRI GAGCTC 2 cut(s) 203, 406
EcoNI CCTNNNNNAGG 1 cut(s) 674
EcoRI GAATTC 1 cut(s) 744
EcoRII CCWGG 1 cut(s) 947
EcoT14I CCWWGG 1 cut(s) 92
EcoT22I ATGCAT 1 cut(s) 755
EcoT38I GRGCYC 2 cut(s) 205, 408
ErhI CCWWGG 1 cut(s) 92
Esp3I CGTCTC 1 cut(s) 22
FaeI CATG 7 cut(s) 515, 637, 653, 753, 782, 844, 874
FaqI GGGAC 1 cut(s) 699
FatI CATG 7 cut(s) 511, 633, 649, 749, 778, 840, 870
Fnu4HI GCNGC 1 cut(s) 489
FokI GGATG 2 cut(s) 201, 809
FriOI GRGCYC 2 cut(s) 205, 408
Fsp4HI GCNGC 1 cut(s) 489
FspBI CTAG 1 cut(s) 561
GlaI GCGC 2 cut(s) 99, 377
GluI GCNGC 1 cut(s) 489
GsaI CCCAGC 2 cut(s) 771, 910
GsuI CTGGAG 1 cut(s) 46
HaeII RGCGCY 2 cut(s) 101, 379
HaeIII GGCC 5 cut(s) 51, 210, 482, 619, 669
HapII CCGG 4 cut(s) 52, 284, 479, 483
HgaI GACGC 2 cut(s) 378, 464
HhaI GCGC 2 cut(s) 100, 378
Hin1I GRCGYC 1 cut(s) 31
Hin1II CATG 7 cut(s) 515, 637, 653, 753, 782, 844, 874
Hin6I GCGC 2 cut(s) 98, 376
HinP1I GCGC 2 cut(s) 98, 376
HincII GTYRAC 1 cut(s) 574
HindII GTYRAC 1 cut(s) 574
HinfI GANTC 5 cut(s) 168, 308, 338, 344, 350
HpaII CCGG 4 cut(s) 52, 284, 479, 483
Hpy166II GTNNAC 2 cut(s) 537, 574
Hpy188I TCNGA 7 cut(s) 19, 337, 343, 349, 368, 424, 927
Hpy188III TCNNGA 5 cut(s) 25, 72, 178, 260, 499
Hpy8I GTNNAC 2 cut(s) 537, 574
Hpy99I CGWCG 1 cut(s) 36
HpyAV CCTTC 7 cut(s) 37, 110, 139, 280, 376, 545, 630
HpyCH4III ACNGT 2 cut(s) 466, 644
HpyCH4IV ACGT 3 cut(s) 31, 395, 585
HpyCH4V TGCA 8 cut(s) 435, 491, 511, 730, 753, 809, 832, 851
HpyF10VI GCNNNNNNNGC 4 cut(s) 65, 263, 488, 616
HpySE526I ACGT 3 cut(s) 31, 395, 585
Hsp92I GRCGYC 1 cut(s) 31
Hsp92II CATG 7 cut(s) 515, 637, 653, 753, 782, 844, 874
HspAI GCGC 2 cut(s) 98, 376
KroI GCCGGC 1 cut(s) 283
KroNI GCCGGC 1 cut(s) 285
Kzo9I GATC 7 cut(s) 19, 35, 87, 180, 523, 658, 922
LmnI GCTCC 2 cut(s) 20, 262
Lsp1109I GCAGC 1 cut(s) 475
LweI GCATC 1 cut(s) 920
MabI ACCWGGT 1 cut(s) 947
MaeI CTAG 1 cut(s) 561
MaeII ACGT 3 cut(s) 31, 395, 585
MaeIII GTNAC 3 cut(s) 219, 460, 917
MalI GATC 7 cut(s) 21, 37, 89, 182, 525, 660, 924
MboI GATC 7 cut(s) 19, 35, 87, 180, 523, 658, 922
MflI RGATCY 2 cut(s) 180, 658
MhlI GDGCHC 3 cut(s) 205, 306, 408
MluCI AATT 5 cut(s) 104, 110, 454, 690, 744
MlyI GAGTC 3 cut(s) 302, 338, 344
MmeI TCCRAC 2 cut(s) 371, 372
MnlI CCTC 4 cut(s) 256, 855, 894, 949
Mph1103I ATGCAT 1 cut(s) 755
MroNI GCCGGC 1 cut(s) 283
MroXI GAANNNNTTC 2 cut(s) 596, 882
MslI CAYNNNNRTG 1 cut(s) 139
MspI CCGG 4 cut(s) 52, 284, 479, 483
MspR9I CCNGG 2 cut(s) 484, 949
Mva1269I GAATGC 2 cut(s) 437, 753
MvaI CCWGG 1 cut(s) 949
MwoI GCNNNNNNNGC 4 cut(s) 65, 263, 488, 616
NaeI GCCGGC 1 cut(s) 285
NciI CCSGG 1 cut(s) 484
NdeII GATC 7 cut(s) 19, 35, 87, 180, 523, 658, 922
NgoMIV GCCGGC 1 cut(s) 283
NlaIII CATG 7 cut(s) 515, 637, 653, 753, 782, 844, 874
NlaIV GGNNCC 2 cut(s) 16, 64
NmeAIII GCCGAG 1 cut(s) 186
NmuCI GTSAC 1 cut(s) 917
NsiI ATGCAT 1 cut(s) 755
NspI RCATGY 2 cut(s) 653, 874
PaeR7I CTCGAG 1 cut(s) 407
PcsI WCGNNNNNNNCGW 3 cut(s) 242, 297, 333
PctI GAATGC 2 cut(s) 437, 753
PdiI GCCGGC 1 cut(s) 285
PdmI GAANNNNTTC 2 cut(s) 596, 882
PfeI GAWTC 2 cut(s) 168, 338
PflMI CCANNNNNTGG 1 cut(s) 385
PkrI GCNGC 1 cut(s) 490
PleI GAGTC 3 cut(s) 302, 338, 344
PpsI GAGTC 3 cut(s) 302, 338, 344
Psp124BI GAGCTC 2 cut(s) 205, 408
Psp6I CCWGG 1 cut(s) 947
PspFI CCCAGC 2 cut(s) 767, 906
PspGI CCWGG 1 cut(s) 947
PspN4I GGNNCC 2 cut(s) 16, 64
PspXI VCTCGAGB 1 cut(s) 407
PstI CTGCAG 2 cut(s) 493, 834
PsuI RGATCY 2 cut(s) 180, 658
RseI CAYNNNNRTG 1 cut(s) 139
SacI GAGCTC 2 cut(s) 205, 408
SatI GCNGC 1 cut(s) 489
Sau3AI GATC 7 cut(s) 19, 35, 87, 180, 523, 658, 922
SchI GAGTC 3 cut(s) 302, 338, 344
ScrFI CCNGG 2 cut(s) 484, 949
SduI GDGCHC 3 cut(s) 205, 306, 408
SexAI ACCWGGT 1 cut(s) 947
SfaNI GCATC 1 cut(s) 920
SfcI CTRYAG 2 cut(s) 489, 830
Sfr274I CTCGAG 1 cut(s) 407
SlaI CTCGAG 1 cut(s) 407
SmiMI CAYNNNNRTG 1 cut(s) 139
SmlI CTYRAG 2 cut(s) 407, 815
SmoI CTYRAG 2 cut(s) 407, 815
Sse9I AATT 5 cut(s) 104, 110, 454, 690, 744
SsiI CCGC 1 cut(s) 66
SspMI CTAG 1 cut(s) 561
SstI GAGCTC 2 cut(s) 205, 408
StyD4I CCNGG 2 cut(s) 482, 947
StyI CCWWGG 1 cut(s) 92
TaaI ACNGT 2 cut(s) 466, 644
TaiI ACGT 3 cut(s) 34, 398, 588
TaqI TCGA 5 cut(s) 34, 41, 291, 327, 408
TasI AATT 5 cut(s) 104, 110, 454, 690, 744
TfiI GAWTC 2 cut(s) 168, 338
TscAI CASTG 3 cut(s) 90, 816, 834
TseFI GTSAC 1 cut(s) 917
TseI GCWGC 1 cut(s) 488
Tsp45I GTSAC 1 cut(s) 917
TspDTI ATGAA 1 cut(s) 175
TspGWI ACGGA 1 cut(s) 207
TspRI CASTG 3 cut(s) 90, 816, 834
Van91I CCANNNNNTGG 1 cut(s) 385
XagI CCTNNNNNAGG 1 cut(s) 674
XapI RAATTY 1 cut(s) 744
XceI RCATGY 2 cut(s) 653, 874
XhoI CTCGAG 1 cut(s) 407
XmnI GAANNNNTTC 2 cut(s) 596, 882
XspI CTAG 1 cut(s) 561
ZraI GACGTC 1 cut(s) 32
Zsp2I ATGCAT 1 cut(s) 755
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.