Rh5BG088200

Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5B
OG0006661
Physical Location & Seq
Reverse (-)
7641213 .. 7642491
1279 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5BG088200.1

Sequence Viewer

Length: 630 bp
ATGGTGTCCAAAATAATGAAGATTAGAGCTAGCAAGTTTTCATCCATCAAGAACCGCGACGGCATAAGGCGGCACCACCGCCGCAACTCCTCAGTAAAGAAGGCAGCCGCCGACTCCAAGGTCGTGCTTGCCCGCACTGGCAGCCACAAATGCAGCTTCGAGATCCTAACCCGAACTCAAACTCCAGACCCGGCCGGCCCCGACCCCGGACCTCAAACTACACGCCCCCCACTCCCGCCGTTAACTTCGCCGGAGAAGAGAACCGTGTTTCTCGACCTGGACGAAACACTGGTGCACACTGAGGCCACAGTGCCCCAGCGCTTCAACTTCGTCGTCCGGCCCATTATTCGTGGCACGAAGATGACCTTCTACGTGATCAAACGTCCCGGCGTTGACCAGTTTTTGCAAAGACTGGCAGAGAAGTACGAGGTGGTGGTGTTCACGGCGGGGATGAGAGAGTACGGCACGCTGGTGGTGGACCGACTGGACAGGCAGGGCGTGATATCCCACAGCCTCTACCGCGACTCATGCAAGGAGATGAACGGAAGTTTGGCACTCCTAAGTCTCAGATCATTACACAAACAAGCAAGTCTCTCACTTCCTCGTATGCAGCATGCTAAAAGAAAATAG

Protein Analysis

209

Amino Acids

23.67

Weight (kDa)

10.62

Isoelectric Point (pI)

42.51

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NIF PF03031 88 - 183 6.5e-28 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)
AasI GACNNNNNNGTC 1 cut(s) 119
AccB1I GGYRCC 1 cut(s) 72
AccII CGCG 2 cut(s) 57, 522
AciI CCGC 9 cut(s) 55, 70, 79, 82, 108, 133, 236, 446, 520
AclWI GGATC 1 cut(s) 157
AcoI YGGCCR 1 cut(s) 192
AfaI GTAC 2 cut(s) 425, 461
AfeI AGCGCT 1 cut(s) 320
AfiI CCNNNNNNNGG 1 cut(s) 206
AgsI TTSAA 1 cut(s) 325
AjnI CCWGG 1 cut(s) 276
AjuI GAANNNNNNNTTGG 2 cut(s) 533, 565
AleI CACNNNNGTG 1 cut(s) 470
AloI GAACNNNNNNTCC 2 cut(s) 166, 198
AluBI AGCT 2 cut(s) 29, 156
AluI AGCT 2 cut(s) 29, 156
Alw21I GWGCWC 1 cut(s) 297
Alw26I GTCTC 2 cut(s) 569, 596
Alw44I GTGCAC 1 cut(s) 293
AlwI GGATC 1 cut(s) 157
Aor51HI AGCGCT 1 cut(s) 320
AoxI GGCC 4 cut(s) 192, 196, 303, 338
ApaLI GTGCAC 1 cut(s) 293
ApeKI GCWGC 4 cut(s) 104, 141, 153, 610
AspLEI GCGC 1 cut(s) 321
AspS9I GGNCC 4 cut(s) 197, 209, 339, 478
AsuC2I CCSGG 3 cut(s) 191, 207, 387
AsuNHI GCTAGC 1 cut(s) 29
AvaII GGWCC 2 cut(s) 209, 478
BaeGI GKGCMC 2 cut(s) 297, 315
BanI GGYRCC 1 cut(s) 72
Bbv12I GWGCWC 1 cut(s) 297
BbvI GCAGC 4 cut(s) 116, 153, 165, 622
BccI CCATC 1 cut(s) 53
BceAI ACGGC 4 cut(s) 76, 223, 459, 478
BciT130I CCWGG 1 cut(s) 278
BclI TGATCA 1 cut(s) 375
BcnI CCSGG 3 cut(s) 191, 207, 387
BcoDI GTCTC 2 cut(s) 569, 596
BfaI CTAG 1 cut(s) 30
BfoI RGCGCY 1 cut(s) 322
BisI GCNGC 7 cut(s) 71, 82, 105, 108, 142, 154, 611
BlsI GCNGC 7 cut(s) 72, 83, 106, 109, 143, 155, 612
Bme1390I CCNGG 4 cut(s) 191, 207, 278, 387
Bme18I GGWCC 2 cut(s) 209, 478
BmgT120I GGNCC 4 cut(s) 197, 209, 339, 478
BmiI GGNNCC 2 cut(s) 74, 199
BmrFI CCNGG 4 cut(s) 191, 207, 278, 387
BmtI GCTAGC 1 cut(s) 33
BpmI CTGGAG 1 cut(s) 168
BpuMI CCSGG 3 cut(s) 191, 207, 387
BsaAI YACGTR 1 cut(s) 373
BsaJI CCNNGG 2 cut(s) 117, 205
BsaXI ACNNNNNCTCC 2 cut(s) 166, 196
Bsc4I CCNNNNNNNGG 1 cut(s) 206
Bse118I RCCGGY 1 cut(s) 194
Bse1I ACTGG 5 cut(s) 142, 294, 397, 417, 489
BseBI CCWGG 1 cut(s) 278
BseDI CCNNGG 2 cut(s) 117, 205
BseGI GGATG 2 cut(s) 41, 456
BseLI CCNNNNNNNGG 1 cut(s) 206
BseMII CTCAG 3 cut(s) 105, 291, 580
BseNI ACTGG 5 cut(s) 142, 294, 397, 417, 489
BseRI GAGGAG 1 cut(s) 79
BseSI GKGCMC 2 cut(s) 297, 315
BseX3I CGGCCG 1 cut(s) 192
BseXI GCAGC 4 cut(s) 116, 153, 165, 622
BseYI CCCAGC 1 cut(s) 315
Bsh1236I CGCG 2 cut(s) 57, 522
Bsh1285I CGRYCG 1 cut(s) 195
BshFI GGCC 4 cut(s) 194, 198, 305, 340
BshNI GGYRCC 1 cut(s) 72
BsiEI CGRYCG 1 cut(s) 195
BsiHKAI GWGCWC 1 cut(s) 297
BsiSI CCGG 6 cut(s) 191, 195, 207, 251, 337, 387
BslFI GGGAC 1 cut(s) 369
BslI CCNNNNNNNGG 1 cut(s) 206
BsmAI GTCTC 2 cut(s) 569, 596
BsmFI GGGAC 1 cut(s) 369
BsnI GGCC 4 cut(s) 194, 198, 305, 340
Bsp1286I GDGCHC 2 cut(s) 297, 315
Bsp143I GATC 3 cut(s) 162, 375, 569
BspACI CCGC 9 cut(s) 55, 70, 79, 82, 108, 133, 236, 446, 520
BspANI GGCC 4 cut(s) 194, 198, 305, 340
BspCNI CTCAG 3 cut(s) 104, 292, 579
BspFNI CGCG 2 cut(s) 57, 522
BspLI GGNNCC 2 cut(s) 74, 199
BspOI GCTAGC 1 cut(s) 33
BspPI GGATC 1 cut(s) 157
BspT107I GGYRCC 1 cut(s) 72
BsrFI RCCGGY 1 cut(s) 194
BsrI ACTGG 5 cut(s) 142, 294, 397, 417, 489
BssAI RCCGGY 1 cut(s) 194
BssECI CCNNGG 2 cut(s) 117, 205
BssMI GATC 3 cut(s) 162, 375, 569
BssT1I CCWWGG 1 cut(s) 117
Bst2UI CCWGG 1 cut(s) 278
Bst4CI ACNGT 2 cut(s) 265, 310
Bst6I CTCTTC 1 cut(s) 251
BstBAI YACGTR 1 cut(s) 373
BstC8I GCNNGC 6 cut(s) 31, 129, 133, 196, 467, 615
BstDEI CTNAG 4 cut(s) 91, 300, 560, 566
BstF5I GGATG 2 cut(s) 41, 456
BstFNI CGCG 2 cut(s) 57, 522
BstH2I RGCGCY 1 cut(s) 322
BstHHI GCGC 1 cut(s) 321
BstKTI GATC 3 cut(s) 165, 378, 572
BstMAI GTCTC 2 cut(s) 569, 596
BstMBI GATC 3 cut(s) 162, 375, 569
BstMCI CGRYCG 1 cut(s) 195
BstMWI GCNNNNNNNGC 4 cut(s) 141, 150, 519, 528
BstNI CCWGG 1 cut(s) 278
BstNSI RCATGY 1 cut(s) 617
BstSCI CCNGG 4 cut(s) 189, 205, 276, 385
BstSLI GKGCMC 2 cut(s) 297, 315
BstUI CGCG 2 cut(s) 57, 522
BstV1I GCAGC 4 cut(s) 116, 153, 165, 622
BstX2I RGATCY 1 cut(s) 162
BstYI RGATCY 1 cut(s) 162
BstZI CGGCCG 1 cut(s) 192
BsuRI GGCC 4 cut(s) 194, 198, 305, 340
BtsCI GGATG 2 cut(s) 41, 456
BtsIMutI CAGTG 4 cut(s) 135, 287, 297, 315
Cac8I GCNNGC 6 cut(s) 31, 129, 133, 196, 467, 615
CfoI GCGC 1 cut(s) 321
Cfr10I RCCGGY 1 cut(s) 194
Cfr13I GGNCC 4 cut(s) 197, 209, 339, 478
Csp6I GTAC 2 cut(s) 424, 460
CviAII CATG 2 cut(s) 528, 614
CviJI RGCY 9 cut(s) 29, 107, 144, 156, 194, 198, 305, 340, 513
CviKI_1 RGCY 9 cut(s) 29, 107, 144, 156, 194, 198, 305, 340, 513
CviQI GTAC 2 cut(s) 424, 460
DdeI CTNAG 4 cut(s) 91, 300, 560, 566
DpnI GATC 3 cut(s) 164, 377, 571
DpnII GATC 3 cut(s) 162, 375, 569
DrdI GACNNNNNNGTC 1 cut(s) 119
DseDI GACNNNNNNGTC 1 cut(s) 119
EaeI YGGCCR 1 cut(s) 192
EagI CGGCCG 1 cut(s) 192
Eam1104I CTCTTC 1 cut(s) 251
EarI CTCTTC 1 cut(s) 251
EclXI CGGCCG 1 cut(s) 192
Eco130I CCWWGG 1 cut(s) 117
Eco32I GATATC 1 cut(s) 504
Eco47I GGWCC 2 cut(s) 209, 478
Eco47III AGCGCT 1 cut(s) 320
Eco52I CGGCCG 1 cut(s) 192
EcoRII CCWGG 1 cut(s) 276
EcoRV GATATC 1 cut(s) 504
EcoT14I CCWWGG 1 cut(s) 117
ErhI CCWWGG 1 cut(s) 117
FaeI CATG 2 cut(s) 531, 617
FaiI YATR 4 cut(s) 65, 529, 608, 615
FalI AAGNNNNNCTT 2 cut(s) 350, 382
FaqI GGGAC 1 cut(s) 369
FatI CATG 2 cut(s) 527, 613
FauI CCCGC 3 cut(s) 140, 243, 439
FbaI TGATCA 1 cut(s) 375
Fnu4HI GCNGC 7 cut(s) 71, 82, 105, 108, 142, 154, 611
FokI GGATG 2 cut(s) 28, 463
FseI GGCCGGCC 1 cut(s) 198
Fsp4HI GCNGC 7 cut(s) 71, 82, 105, 108, 142, 154, 611
FspBI CTAG 1 cut(s) 30
GlaI GCGC 1 cut(s) 320
GluI GCNGC 7 cut(s) 71, 82, 105, 108, 142, 154, 611
GsaI CCCAGC 1 cut(s) 319
GsuI CTGGAG 1 cut(s) 168
HaeII RGCGCY 1 cut(s) 322
HaeIII GGCC 4 cut(s) 194, 198, 305, 340
HapII CCGG 6 cut(s) 191, 195, 207, 251, 337, 387
HhaI GCGC 1 cut(s) 321
Hin1II CATG 2 cut(s) 531, 617
Hin6I GCGC 1 cut(s) 319
HinP1I GCGC 1 cut(s) 319
HincII GTYRAC 2 cut(s) 243, 394
HindII GTYRAC 2 cut(s) 243, 394
HinfI GANTC 2 cut(s) 113, 524
HpaI GTTAAC 1 cut(s) 243
HpaII CCGG 6 cut(s) 191, 195, 207, 251, 337, 387
Hpy166II GTNNAC 5 cut(s) 243, 295, 394, 441, 478
Hpy188I TCNGA 1 cut(s) 569
Hpy188III TCNNGA 4 cut(s) 49, 160, 185, 272
Hpy8I GTNNAC 5 cut(s) 243, 295, 394, 441, 478
Hpy99I CGWCG 2 cut(s) 62, 335
HpyAV CCTTC 2 cut(s) 94, 376
HpyCH4III ACNGT 2 cut(s) 265, 310
HpyCH4IV ACGT 2 cut(s) 372, 382
HpyCH4V TGCA 5 cut(s) 153, 295, 406, 531, 610
HpyF10VI GCNNNNNNNGC 4 cut(s) 141, 150, 519, 528
HpyF3I CTNAG 4 cut(s) 91, 300, 560, 566
HpySE526I ACGT 2 cut(s) 372, 382
Hsp92II CATG 2 cut(s) 531, 617
HspAI GCGC 1 cut(s) 319
KroI GCCGGC 1 cut(s) 194
KroNI GCCGGC 1 cut(s) 196
Ksp22I TGATCA 1 cut(s) 375
KspAI GTTAAC 1 cut(s) 243
Kzo9I GATC 3 cut(s) 162, 375, 569
Lsp1109I GCAGC 4 cut(s) 116, 153, 165, 622
MaeI CTAG 1 cut(s) 30
MaeII ACGT 2 cut(s) 372, 382
MalI GATC 3 cut(s) 164, 377, 571
MboI GATC 3 cut(s) 162, 375, 569
MboII GAAGA 3 cut(s) 31, 268, 370
MflI RGATCY 1 cut(s) 162
MhlI GDGCHC 2 cut(s) 297, 315
MlyI GAGTC 2 cut(s) 107, 518
MnlI CCTC 6 cut(s) 100, 222, 295, 421, 524, 612
MroNI GCCGGC 1 cut(s) 194
MseI TTAA 1 cut(s) 242
MslI CAYNNNNRTG 2 cut(s) 359, 470
MspI CCGG 6 cut(s) 191, 195, 207, 251, 337, 387
MspR9I CCNGG 4 cut(s) 191, 207, 278, 387
MvaI CCWGG 1 cut(s) 278
MvnI CGCG 2 cut(s) 57, 522
MwoI GCNNNNNNNGC 4 cut(s) 141, 150, 519, 528
NaeI GCCGGC 1 cut(s) 196
NciI CCSGG 3 cut(s) 191, 207, 387
NdeII GATC 3 cut(s) 162, 375, 569
NgoMIV GCCGGC 1 cut(s) 194
NheI GCTAGC 1 cut(s) 29
NlaIII CATG 2 cut(s) 531, 617
NlaIV GGNNCC 2 cut(s) 74, 199
NspI RCATGY 1 cut(s) 617
OliI CACNNNNGTG 1 cut(s) 470
PaeI GCATGC 1 cut(s) 617
PcsI WCGNNNNNNNCGW 1 cut(s) 279
PdiI GCCGGC 1 cut(s) 196
PkrI GCNGC 7 cut(s) 72, 83, 106, 109, 143, 155, 612
PleI GAGTC 2 cut(s) 107, 518
PpsI GAGTC 2 cut(s) 107, 518
Ppu21I YACGTR 1 cut(s) 373
Psp6I CCWGG 1 cut(s) 276
PspFI CCCAGC 1 cut(s) 315
PspGI CCWGG 1 cut(s) 276
PspN4I GGNNCC 2 cut(s) 74, 199
PspPI GGNCC 4 cut(s) 197, 209, 339, 478
PsuI RGATCY 1 cut(s) 162
RigI GGCCGGCC 1 cut(s) 198
RsaI GTAC 2 cut(s) 425, 461
RsaNI GTAC 2 cut(s) 424, 460
RseI CAYNNNNRTG 2 cut(s) 359, 470
SaqAI TTAA 1 cut(s) 242
SatI GCNGC 7 cut(s) 71, 82, 105, 108, 142, 154, 611
Sau3AI GATC 3 cut(s) 162, 375, 569
Sau96I GGNCC 4 cut(s) 197, 209, 339, 478
SchI GAGTC 2 cut(s) 107, 518
ScrFI CCNGG 4 cut(s) 191, 207, 278, 387
SduI GDGCHC 2 cut(s) 297, 315
SetI ASST 9 cut(s) 31, 123, 158, 214, 279, 368, 375, 385, 432
SinI GGWCC 2 cut(s) 209, 478
SmiMI CAYNNNNRTG 2 cut(s) 359, 470
SphI GCATGC 1 cut(s) 617
SsiI CCGC 9 cut(s) 55, 70, 79, 82, 108, 133, 236, 446, 520
SspMI CTAG 1 cut(s) 30
StyD4I CCNGG 4 cut(s) 189, 205, 276, 385
StyI CCWWGG 1 cut(s) 117
TaaI ACNGT 2 cut(s) 265, 310
TaiI ACGT 2 cut(s) 375, 385
TaqI TCGA 2 cut(s) 159, 273
TaqII GACCGA 1 cut(s) 495
TauI GCSGC 3 cut(s) 73, 84, 110
Tru1I TTAA 1 cut(s) 242
Tru9I TTAA 1 cut(s) 242
TscAI CASTG 4 cut(s) 142, 294, 304, 315
TseI GCWGC 4 cut(s) 104, 141, 153, 610
TspDTI ATGAA 3 cut(s) 30, 32, 554
TspGWI ACGGA 1 cut(s) 558
TspRI CASTG 4 cut(s) 142, 294, 304, 315
VneI GTGCAC 1 cut(s) 293
VpaK11BI GGWCC 2 cut(s) 209, 478
XceI RCATGY 1 cut(s) 617
XspI CTAG 1 cut(s) 30
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.