RLG00000027058

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 (+)
8040050 .. 8042071
2022 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000027058

Sequence Viewer

Length: 906 bp
ATGGCCGAGTTGACTCAGAACGAGGTGGCTTACTCGCCCAAGACTATGCAAGTGTGGAAGGCTTTGCTGAATTGGCTGGGTTTCTTCTTCCAGATCTTCGTTCAAATCGTCAGCTCTCTCGGCCACCATGCCTTACTCTCTTCTTCTTCTTCATCCTCTTCTTCCGACGCTTCCTTCAAATCCTTGCCGGCTGTCGAGTTGCAGGAGCACGACTCTTCCGCCGCCGTATCCGCCGTTGAAATCGACACTCCCGATTCTGACTCCGACGATCCTCCCCAGAAGCTAACGGTGGTTCTTGACCTGGATGAGACGCTTATATGTGCATATGAGTCGGCGAGCTTGCCCGGGATAGTTCGGACGCAAGCGACAGAAGGTGGGTTGAAGTGGTTTGAGCTCGAGTGTATTTCTTCGGACAAGGAATGTGATGGGAAACCGAAGGTGAATTATGTTACGGTTTTTGAGCGTCCGGGGCTGCATGAGTTCTTGAAACAAGTTCATGGGTTTGCCGATCTTGTGTTGTTTACTGCTGGACTTGAAGGTTATGCTAGACCACTTGTTGACAGAATAGACGTAGAGAACCTGTTCAGTTTTAGGCTTTATCGGCCTTCAACAACCAGCACGGAATACCGTGAGCATGTCAAGGATCTCTCTGGCCTATCAAAGGATATGGGCCGAATTGTTATTGTTGACAACAACCCTTTCAGTTTCATGTTGCAACCTTTGAATGGAATTCCGTGCATTCCATTTTCTGCTGGGCAAATACATGACACACAGCTTTTGGATGTTCTTCTTCCACTGCTGAAGCACCTATCGCTACAGAAAGACGTGAGACCTGTGCTTTATGAGAGGTTTCACATGCCTGAATGGTTTCAAAAGCAGGGAATCCCTTCAACTAGTTGGAAATAG

Protein Analysis

302

Amino Acids

33.7

Weight (kDa)

5.03

Isoelectric Point (pI)

32.58

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NIF PF03031 95 - 277 1.6e-39 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)
AciI CCGC 3 cut(s) 219, 222, 231
AclWI GGATC 2 cut(s) 263, 651
AcoI YGGCCR 2 cut(s) 3, 121
AcsI RAATTY 1 cut(s) 729
AcuI CTGAAG 1 cut(s) 821
AfiI CCNNNNNNNGG 2 cut(s) 661, 725
AhlI ACTAGT 1 cut(s) 893
AjiI CACGTC 1 cut(s) 826
AjnI CCWGG 1 cut(s) 300
AluBI AGCT 5 cut(s) 114, 283, 339, 394, 775
AluI AGCT 5 cut(s) 114, 283, 339, 394, 775
Alw21I GWGCWC 2 cut(s) 210, 396
Alw26I GTCTC 2 cut(s) 302, 823
AlwI GGATC 2 cut(s) 263, 651
Ama87I CYCGRG 2 cut(s) 344, 395
AoxI GGCC 5 cut(s) 3, 121, 602, 652, 670
ApeKI GCWGC 1 cut(s) 472
ApoI RAATTY 1 cut(s) 729
Asp700I GAANNNNTTC 3 cut(s) 581, 867, 886
AspS9I GGNCC 1 cut(s) 670
AsuC2I CCSGG 3 cut(s) 345, 346, 468
AsuHPI GGTGA 1 cut(s) 451
AvaI CYCGRG 2 cut(s) 344, 395
BanII GRGCYC 1 cut(s) 396
Bbv12I GWGCWC 2 cut(s) 210, 396
BbvI GCAGC 1 cut(s) 459
BccI CCATC 1 cut(s) 419
BceAI ACGGC 2 cut(s) 209, 218
BcgI CGANNNNNNTGC 2 cut(s) 312, 346
BciT130I CCWGG 1 cut(s) 302
BciVI GTATCC 1 cut(s) 238
BcnI CCSGG 3 cut(s) 345, 346, 468
BcoDI GTCTC 2 cut(s) 302, 823
BcuI ACTAGT 1 cut(s) 893
BfaI CTAG 2 cut(s) 546, 894
BfmI CTRYAG 1 cut(s) 815
BfuI GTATCC 1 cut(s) 238
BglII AGATCT 1 cut(s) 93
BisI GCNGC 2 cut(s) 222, 473
BlsI GCNGC 2 cut(s) 223, 474
Bme1390I CCNGG 4 cut(s) 302, 345, 346, 468
BmeT110I CYCGRG 2 cut(s) 344, 395
BmgBI CACGTC 1 cut(s) 826
BmgT120I GGNCC 1 cut(s) 670
BmrFI CCNGG 4 cut(s) 302, 345, 346, 468
BplI GAGNNNNNCTC 2 cut(s) 197, 229
BpuMI CCSGG 3 cut(s) 345, 346, 468
BsaI GGTCTC 1 cut(s) 823
BsaJI CCNNGG 2 cut(s) 344, 467
Bsc4I CCNNNNNNNGG 2 cut(s) 661, 725
Bse118I RCCGGY 1 cut(s) 187
BseBI CCWGG 1 cut(s) 302
BseDI CCNNGG 2 cut(s) 344, 467
BseGI GGATG 3 cut(s) 152, 310, 787
BseLI CCNNNNNNNGG 2 cut(s) 661, 725
BseMII CTCAG 1 cut(s) 29
BseXI GCAGC 1 cut(s) 459
BseYI CCCAGC 2 cut(s) 76, 752
BshFI GGCC 5 cut(s) 5, 123, 604, 654, 672
BsiHKAI GWGCWC 2 cut(s) 210, 396
BsiHKCI CYCGRG 2 cut(s) 344, 395
BsiSI CCGG 3 cut(s) 188, 345, 467
BslI CCNNNNNNNGG 2 cut(s) 661, 725
BsmAI GTCTC 2 cut(s) 302, 823
BsmBI CGTCTC 1 cut(s) 302
BsmI GAATGC 1 cut(s) 738
BsnI GGCC 5 cut(s) 5, 123, 604, 654, 672
Bso31I GGTCTC 1 cut(s) 823
BsoBI CYCGRG 2 cut(s) 344, 395
Bsp1286I GDGCHC 2 cut(s) 210, 396
Bsp143I GATC 4 cut(s) 93, 268, 508, 643
BspACI CCGC 3 cut(s) 219, 222, 231
BspANI GGCC 5 cut(s) 5, 123, 604, 654, 672
BspCNI CTCAG 1 cut(s) 28
BspPI GGATC 2 cut(s) 263, 651
BspTNI GGTCTC 1 cut(s) 823
BsrFI RCCGGY 1 cut(s) 187
BssAI RCCGGY 1 cut(s) 187
BssECI CCNNGG 2 cut(s) 344, 467
BssMI GATC 4 cut(s) 93, 268, 508, 643
Bst2UI CCWGG 1 cut(s) 302
Bst4CI ACNGT 3 cut(s) 289, 454, 629
Bst6I CTCTTC 3 cut(s) 145, 163, 220
BstC8I GCNNGC 4 cut(s) 189, 337, 341, 363
BstDEI CTNAG 1 cut(s) 15
BstENI CCTNNNNNAGG 1 cut(s) 659
BstF5I GGATG 3 cut(s) 152, 310, 787
BstKTI GATC 4 cut(s) 96, 271, 511, 646
BstMAI GTCTC 2 cut(s) 302, 823
BstMBI GATC 4 cut(s) 93, 268, 508, 643
BstMWI GCNNNNNNNGC 6 cut(s) 73, 120, 230, 469, 601, 811
BstNI CCWGG 1 cut(s) 302
BstNSI RCATGY 2 cut(s) 638, 859
BstSCI CCNGG 4 cut(s) 300, 343, 344, 466
BstSFI CTRYAG 1 cut(s) 815
BstV1I GCAGC 1 cut(s) 459
BstX2I RGATCY 2 cut(s) 93, 643
BstYI RGATCY 2 cut(s) 93, 643
BsuI GTATCC 1 cut(s) 238
BsuRI GGCC 5 cut(s) 5, 123, 604, 654, 672
BtrI CACGTC 1 cut(s) 826
BtsCI GGATG 3 cut(s) 152, 310, 787
BtsI GCAGTG 1 cut(s) 794
BtsIMutI CAGTG 1 cut(s) 794
Cac8I GCNNGC 4 cut(s) 189, 337, 341, 363
Cfr10I RCCGGY 1 cut(s) 187
Cfr13I GGNCC 1 cut(s) 670
Cfr9I CCCGGG 1 cut(s) 344
CseI GACGC 4 cut(s) 176, 319, 367, 452
CviAII CATG 7 cut(s) 128, 476, 497, 635, 709, 764, 856
DdeI CTNAG 1 cut(s) 15
DpnI GATC 4 cut(s) 95, 270, 510, 645
DpnII GATC 4 cut(s) 93, 268, 508, 643
EaeI YGGCCR 2 cut(s) 3, 121
Eam1104I CTCTTC 3 cut(s) 145, 163, 220
EarI CTCTTC 3 cut(s) 145, 163, 220
EciI GGCGGA 2 cut(s) 208, 220
Ecl136II GAGCTC 1 cut(s) 394
Eco24I GRGCYC 1 cut(s) 396
Eco31I GGTCTC 1 cut(s) 823
Eco53kI GAGCTC 1 cut(s) 394
Eco57I CTGAAG 1 cut(s) 821
Eco88I CYCGRG 2 cut(s) 344, 395
EcoICRI GAGCTC 1 cut(s) 394
EcoNI CCTNNNNNAGG 1 cut(s) 659
EcoRI GAATTC 1 cut(s) 729
EcoRII CCWGG 1 cut(s) 300
EcoT38I GRGCYC 1 cut(s) 396
Esp3I CGTCTC 1 cut(s) 302
FaeI CATG 7 cut(s) 131, 479, 500, 638, 712, 767, 859
FatI CATG 7 cut(s) 127, 475, 496, 634, 708, 763, 855
FauNDI CATATG 1 cut(s) 325
Fnu4HI GCNGC 2 cut(s) 222, 473
FokI GGATG 3 cut(s) 139, 317, 794
FriOI GRGCYC 1 cut(s) 396
Fsp4HI GCNGC 2 cut(s) 222, 473
FspBI CTAG 2 cut(s) 546, 894
GluI GCNGC 2 cut(s) 222, 473
GsaI CCCAGC 2 cut(s) 80, 756
HaeIII GGCC 5 cut(s) 5, 123, 604, 654, 672
HapII CCGG 3 cut(s) 188, 345, 467
HgaI GACGC 4 cut(s) 176, 319, 367, 452
Hin1II CATG 7 cut(s) 131, 479, 500, 638, 712, 767, 859
HincII GTYRAC 3 cut(s) 12, 559, 688
HindII GTYRAC 3 cut(s) 12, 559, 688
HinfI GANTC 6 cut(s) 13, 212, 254, 260, 329, 882
HpaII CCGG 3 cut(s) 188, 345, 467
HphI GGTGA 1 cut(s) 451
Hpy166II GTNNAC 4 cut(s) 12, 522, 559, 688
Hpy188I TCNGA 6 cut(s) 18, 166, 259, 265, 357, 412
Hpy188III TCNNGA 4 cut(s) 91, 251, 296, 484
Hpy8I GTNNAC 4 cut(s) 12, 522, 559, 688
Hpy99I CGWCG 2 cut(s) 170, 269
HpyAV CCTTC 7 cut(s) 52, 184, 365, 430, 530, 615, 897
HpyCH4III ACNGT 3 cut(s) 289, 454, 629
HpyCH4IV ACGT 2 cut(s) 570, 825
HpyCH4V TGCA 6 cut(s) 49, 202, 323, 475, 715, 738
HpyF10VI GCNNNNNNNGC 6 cut(s) 73, 120, 230, 469, 601, 811
HpyF3I CTNAG 1 cut(s) 15
HpySE526I ACGT 2 cut(s) 570, 825
Hsp92II CATG 7 cut(s) 131, 479, 500, 638, 712, 767, 859
KroI GCCGGC 1 cut(s) 187
KroNI GCCGGC 1 cut(s) 189
Kzo9I GATC 4 cut(s) 93, 268, 508, 643
LmnI GCTCC 1 cut(s) 205
Lsp1109I GCAGC 1 cut(s) 459
MaeI CTAG 2 cut(s) 546, 894
MaeII ACGT 2 cut(s) 570, 825
MaeIII GTNAC 1 cut(s) 448
MalI GATC 4 cut(s) 95, 270, 510, 645
MboI GATC 4 cut(s) 93, 268, 508, 643
MflI RGATCY 2 cut(s) 93, 643
MhlI GDGCHC 2 cut(s) 210, 396
MluCI AATT 4 cut(s) 70, 442, 675, 729
MlyI GAGTC 4 cut(s) 7, 206, 254, 338
MmeI TCCRAC 3 cut(s) 189, 288, 878
MnlI CCTC 4 cut(s) 16, 166, 282, 840
MroNI GCCGGC 1 cut(s) 187
MroXI GAANNNNTTC 3 cut(s) 581, 867, 886
MspI CCGG 3 cut(s) 188, 345, 467
MspR9I CCNGG 4 cut(s) 302, 345, 346, 468
Mva1269I GAATGC 1 cut(s) 738
MvaI CCWGG 1 cut(s) 302
MwoI GCNNNNNNNGC 6 cut(s) 73, 120, 230, 469, 601, 811
NaeI GCCGGC 1 cut(s) 189
NciI CCSGG 3 cut(s) 345, 346, 468
NdeI CATATG 1 cut(s) 325
NdeII GATC 4 cut(s) 93, 268, 508, 643
NgoMIV GCCGGC 1 cut(s) 187
NlaIII CATG 7 cut(s) 131, 479, 500, 638, 712, 767, 859
NmeAIII GCCGAG 2 cut(s) 31, 99
NspI RCATGY 2 cut(s) 638, 859
PaeR7I CTCGAG 1 cut(s) 395
PcsI WCGNNNNNNNCGW 2 cut(s) 105, 249
PctI GAATGC 1 cut(s) 738
PdiI GCCGGC 1 cut(s) 189
PdmI GAANNNNTTC 3 cut(s) 581, 867, 886
PfeI GAWTC 2 cut(s) 254, 882
PkrI GCNGC 2 cut(s) 223, 474
PleI GAGTC 4 cut(s) 7, 206, 254, 337
PpsI GAGTC 4 cut(s) 7, 206, 254, 337
Psp124BI GAGCTC 1 cut(s) 396
Psp6I CCWGG 1 cut(s) 300
PspFI CCCAGC 2 cut(s) 76, 752
PspGI CCWGG 1 cut(s) 300
PspPI GGNCC 1 cut(s) 670
PspXI VCTCGAGB 1 cut(s) 395
PsuI RGATCY 2 cut(s) 93, 643
SacI GAGCTC 1 cut(s) 396
SatI GCNGC 2 cut(s) 222, 473
Sau3AI GATC 4 cut(s) 93, 268, 508, 643
Sau96I GGNCC 1 cut(s) 670
SchI GAGTC 4 cut(s) 7, 206, 254, 338
ScrFI CCNGG 4 cut(s) 302, 345, 346, 468
SduI GDGCHC 2 cut(s) 210, 396
SfcI CTRYAG 1 cut(s) 815
Sfr274I CTCGAG 1 cut(s) 395
SlaI CTCGAG 1 cut(s) 395
SmaI CCCGGG 1 cut(s) 346
SmlI CTYRAG 1 cut(s) 395
SmoI CTYRAG 1 cut(s) 395
SpeI ACTAGT 1 cut(s) 893
Sse9I AATT 4 cut(s) 70, 442, 675, 729
SsiI CCGC 3 cut(s) 219, 222, 231
SspMI CTAG 2 cut(s) 546, 894
SstI GAGCTC 1 cut(s) 396
StyD4I CCNGG 4 cut(s) 300, 343, 344, 466
TaaI ACNGT 3 cut(s) 289, 454, 629
TaiI ACGT 2 cut(s) 573, 828
TaqI TCGA 3 cut(s) 195, 243, 396
TasI AATT 4 cut(s) 70, 442, 675, 729
TauI GCSGC 1 cut(s) 224
TfiI GAWTC 2 cut(s) 254, 882
TscAI CASTG 1 cut(s) 801
TseI GCWGC 1 cut(s) 472
TspDTI ATGAA 3 cut(s) 141, 485, 697
TspGWI ACGGA 2 cut(s) 635, 723
TspMI CCCGGG 1 cut(s) 344
TspRI CASTG 1 cut(s) 801
XagI CCTNNNNNAGG 1 cut(s) 659
XapI RAATTY 1 cut(s) 729
XceI RCATGY 2 cut(s) 638, 859
XhoI CTCGAG 1 cut(s) 395
XmaI CCCGGG 1 cut(s) 344
XmnI GAANNNNTTC 3 cut(s) 581, 867, 886
XspI CTAG 2 cut(s) 546, 894
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.