Rh5DG088700

Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5D
OG0006661
Physical Location & Seq
Reverse (-)
7790894 .. 7791784
891 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5DG088700.1

Sequence Viewer

Length: 891 bp
ATGGTGGCCAAGTTCATGAAGAAAAGCCCAAGCAAGTCCATAGCCACCAAGCGCCGTCACCACCGCCGGTCCGCCGCGAAGAAAGCCGCGACCGCCGCCTCAACCGCCGTCCTCTCCTCGCTGATCACTTGCCAGCGCCGCCTCATCAAGCTCTTCAACAAACTAGCGCGTGTCGGCACGCCCAACCGCCACAAAGGCTTCAAGATCCTCAAGAAGACAACCGCCCAAACCCCCGACCCGACCCGACCCGAAGAAGCCCCGGTTTGCCGCGCGCTCTTCTTCGCCGGCGGCCCGCTCCCGCCGCAGATTTTTCCTGAGAAGAGGACGATCGTCCTCGATCTCGACGAGACCATGGTCCACTCGCAGGCCGGATCGCCGCCGGAGAAGTACGACTTCGTCGTCCGGCCGAGGATCGACGGCATGGTGTTGGATTTCTACGTTCTGAAGCGGCCCGGAGTGGACGAGTTGCTGGAGAAGCTCGGCGAGAAGTATGAGGTGGTGGTGTTCACGGCGGGGCTGAGAGAGTACGCTTCTTTGGTGCTGGACCGGTTGGACCGGAAGCGCGTGATCTCCCATCGCCTGTACCGCGACTCGTGCAAGGAGGTGGATGGGAAGTTCGTGAAGGACTTGTCCGGCTTGGGGAGGGACTTGAGGCGCGTGGTGATCGTGGACGACAATCCGAACTCCTACGCGCTTCAACCGGAGAATGGGGTACCGGTCCGGCCGTTTTTGGATGACATGGCGGACCGGGAACTGGGGAAGTTGGTGGAGTTTTTTGAAGGGGAGCAATGTGGATGCTGTGAGGATATGAGGGATGCTGTGAAGAACTATGTTGCTGCTGGGGAATGTGTTGCGAAAAATGACGAAGAATTCGAAACTTTGCAGACTTGA

Protein Analysis

296

Amino Acids

33.36

Weight (kDa)

9.14

Isoelectric Point (pI)

46.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NIF PF03031 109 - 270 3.5e-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)
AasI GACNNNNNNGTC 1 cut(s) 398
Acc65I GGTACC 1 cut(s) 712
AccB1I GGYRCC 1 cut(s) 712
AccBSI CCGCTC 1 cut(s) 295
AccII CGCG 9 cut(s) 77, 89, 169, 270, 272, 564, 588, 657, 692
AclWI GGATC 3 cut(s) 199, 379, 419
AcoI YGGCCR 3 cut(s) 6, 404, 722
AcsI RAATTY 1 cut(s) 869
AcuI CTGAAG 1 cut(s) 464
AfaI GTAC 4 cut(s) 389, 527, 584, 714
AfiI CCNNNNNNNGG 4 cut(s) 364, 639, 707, 754
AgeI ACCGGT 2 cut(s) 546, 715
AgsI TTSAA 4 cut(s) 157, 202, 698, 779
AloI GAACNNNNNNTCC 2 cut(s) 599, 631
AluBI AGCT 2 cut(s) 151, 478
AluI AGCT 2 cut(s) 151, 478
Alw26I GTCTC 1 cut(s) 341
AlwI GGATC 3 cut(s) 199, 379, 419
AoxI GGCC 6 cut(s) 6, 289, 366, 404, 449, 722
ApeKI GCWGC 1 cut(s) 836
ApoI RAATTY 1 cut(s) 869
ArsI GACNNNNNNTTYG 2 cut(s) 854, 886
AsiGI ACCGGT 2 cut(s) 546, 715
Asp718I GGTACC 1 cut(s) 712
AspLEI GCGC 8 cut(s) 54, 138, 169, 272, 274, 564, 657, 694
AspS9I GGNCC 8 cut(s) 69, 290, 355, 450, 544, 553, 718, 745
AsuC2I CCSGG 3 cut(s) 260, 453, 749
AsuHPI GGTGA 2 cut(s) 50, 673
AsuII TTCGAA 1 cut(s) 873
AvaII GGWCC 6 cut(s) 69, 355, 544, 553, 718, 745
BalI TGGCCA 1 cut(s) 8
BanI GGYRCC 1 cut(s) 712
BauI CACGAG 1 cut(s) 592
BbsI GAAGAC 1 cut(s) 221
BbvI GCAGC 1 cut(s) 823
BccI CCATC 2 cut(s) 582, 602
BceAI ACGGC 5 cut(s) 39, 92, 433, 525, 709
BclI TGATCA 1 cut(s) 123
BcnI CCSGG 3 cut(s) 260, 453, 749
BcoDI GTCTC 1 cut(s) 341
BfaI CTAG 1 cut(s) 164
BfoI RGCGCY 2 cut(s) 55, 139
BglI GCCNNNNNGGC 1 cut(s) 195
Bme1390I CCNGG 3 cut(s) 260, 453, 749
Bme18I GGWCC 6 cut(s) 69, 355, 544, 553, 718, 745
BmgT120I GGNCC 8 cut(s) 69, 290, 355, 450, 544, 553, 718, 745
BmiI GGNNCC 1 cut(s) 714
BmrFI CCNGG 3 cut(s) 260, 453, 749
BmrI ACTGGG 1 cut(s) 764
BmsI GCATC 2 cut(s) 785, 805
BmuI ACTGGG 1 cut(s) 764
BoxI GACNNNNGTC 2 cut(s) 329, 353
BpiI GAAGAC 1 cut(s) 221
BpmI CTGGAG 1 cut(s) 491
Bpu14I TTCGAA 1 cut(s) 873
BpuEI CTTGAG 2 cut(s) 194, 670
BpuMI CCSGG 3 cut(s) 260, 453, 749
BsaI GGTCTC 1 cut(s) 341
BsaJI CCNNGG 3 cut(s) 258, 351, 407
BsaWI WCCGGW 4 cut(s) 546, 555, 700, 715
Bsc4I CCNNNNNNNGG 4 cut(s) 364, 639, 707, 754
Bse118I RCCGGY 4 cut(s) 66, 284, 546, 715
Bse1I ACTGG 1 cut(s) 759
Bse3DI GCAATG 1 cut(s) 794
BseDI CCNNGG 3 cut(s) 258, 351, 407
BseGI GGATG 4 cut(s) 613, 739, 800, 820
BseLI CCNNNNNNNGG 4 cut(s) 364, 639, 707, 754
BseMI GCAATG 1 cut(s) 794
BseMII CTCAG 2 cut(s) 306, 509
BseNI ACTGG 1 cut(s) 759
BsePI GCGCGC 1 cut(s) 270
BseRI GAGGAG 1 cut(s) 106
BseX3I CGGCCG 2 cut(s) 404, 722
BseXI GCAGC 1 cut(s) 823
BseYI CCCAGC 1 cut(s) 839
Bsh1236I CGCG 9 cut(s) 77, 89, 169, 270, 272, 564, 588, 657, 692
Bsh1285I CGRYCG 4 cut(s) 93, 330, 407, 725
BshFI GGCC 6 cut(s) 8, 291, 368, 406, 451, 724
BshNI GGYRCC 1 cut(s) 712
BshTI ACCGGT 2 cut(s) 546, 715
BsiEI CGRYCG 4 cut(s) 93, 330, 407, 725
BslFI GGGAC 1 cut(s) 659
BslI CCNNNNNNNGG 4 cut(s) 364, 639, 707, 754
BsmAI GTCTC 1 cut(s) 341
BsmFI GGGAC 1 cut(s) 659
BsnI GGCC 6 cut(s) 8, 291, 368, 406, 451, 724
Bso31I GGTCTC 1 cut(s) 341
Bsp119I TTCGAA 1 cut(s) 873
Bsp143I GATC 8 cut(s) 123, 204, 327, 337, 371, 411, 567, 663
Bsp19I CCATGG 1 cut(s) 351
BspANI GGCC 6 cut(s) 8, 291, 368, 406, 451, 724
BspCNI CTCAG 2 cut(s) 307, 510
BspFNI CGCG 9 cut(s) 77, 89, 169, 270, 272, 564, 588, 657, 692
BspHI TCATGA 1 cut(s) 15
BspLI GGNNCC 1 cut(s) 714
BspPI GGATC 3 cut(s) 199, 379, 419
BspQI GCTCTTC 2 cut(s) 158, 281
BspT104I TTCGAA 1 cut(s) 873
BspT107I GGYRCC 1 cut(s) 712
BspTNI GGTCTC 1 cut(s) 341
BsrBI CCGCTC 1 cut(s) 295
BsrDI GCAATG 1 cut(s) 794
BsrFI RCCGGY 4 cut(s) 66, 284, 546, 715
BsrI ACTGG 1 cut(s) 759
BssAI RCCGGY 4 cut(s) 66, 284, 546, 715
BssECI CCNNGG 3 cut(s) 258, 351, 407
BssHII GCGCGC 1 cut(s) 270
BssMI GATC 8 cut(s) 123, 204, 327, 337, 371, 411, 567, 663
BssSI CACGAG 1 cut(s) 592
BssT1I CCWWGG 1 cut(s) 351
Bst2BI CACGAG 1 cut(s) 592
Bst6I CTCTTC 3 cut(s) 158, 281, 314
BstBI TTCGAA 1 cut(s) 873
BstC8I GCNNGC 6 cut(s) 134, 179, 272, 286, 293, 366
BstDEI CTNAG 2 cut(s) 315, 518
BstDSI CCRYGG 1 cut(s) 351
BstF5I GGATG 4 cut(s) 613, 739, 800, 820
BstFNI CGCG 9 cut(s) 77, 89, 169, 270, 272, 564, 588, 657, 692
BstH2I RGCGCY 2 cut(s) 55, 139
BstHHI GCGC 8 cut(s) 54, 138, 169, 272, 274, 564, 657, 694
BstKTI GATC 8 cut(s) 126, 207, 330, 340, 374, 414, 570, 666
BstMAI GTCTC 1 cut(s) 341
BstMBI GATC 8 cut(s) 123, 204, 327, 337, 371, 411, 567, 663
BstMCI CGRYCG 4 cut(s) 93, 330, 407, 725
BstPAI GACNNNNGTC 2 cut(s) 329, 353
BstSCI CCNGG 3 cut(s) 258, 451, 747
BstUI CGCG 9 cut(s) 77, 89, 169, 270, 272, 564, 588, 657, 692
BstV1I GCAGC 1 cut(s) 823
BstV2I GAAGAC 1 cut(s) 221
BstX2I RGATCY 1 cut(s) 204
BstYI RGATCY 1 cut(s) 204
BstZI CGGCCG 2 cut(s) 404, 722
BsuRI GGCC 6 cut(s) 8, 291, 368, 406, 451, 724
BtgI CCRYGG 1 cut(s) 351
BtgZI GCGATG 1 cut(s) 560
BtsCI GGATG 4 cut(s) 613, 739, 800, 820
Cac8I GCNNGC 6 cut(s) 134, 179, 272, 286, 293, 366
CciI TCATGA 1 cut(s) 15
CfoI GCGC 8 cut(s) 54, 138, 169, 272, 274, 564, 657, 694
Cfr10I RCCGGY 4 cut(s) 66, 284, 546, 715
Cfr13I GGNCC 8 cut(s) 69, 290, 355, 450, 544, 553, 718, 745
CpoI CGGWCCG 3 cut(s) 69, 718, 745
Csp6I GTAC 4 cut(s) 388, 526, 583, 713
CspAI ACCGGT 2 cut(s) 546, 715
CspI CGGWCCG 3 cut(s) 69, 718, 745
CviAII CATG 4 cut(s) 16, 352, 421, 739
CviQI GTAC 4 cut(s) 388, 526, 583, 713
DdeI CTNAG 2 cut(s) 315, 518
DpnI GATC 8 cut(s) 125, 206, 329, 339, 373, 413, 569, 665
DpnII GATC 8 cut(s) 123, 204, 327, 337, 371, 411, 567, 663
DrdI GACNNNNNNGTC 1 cut(s) 398
DseDI GACNNNNNNGTC 1 cut(s) 398
EaeI YGGCCR 3 cut(s) 6, 404, 722
EagI CGGCCG 2 cut(s) 404, 722
Eam1104I CTCTTC 3 cut(s) 158, 281, 314
EarI CTCTTC 3 cut(s) 158, 281, 314
EciI GGCGGA 2 cut(s) 61, 758
EclXI CGGCCG 2 cut(s) 404, 722
Eco130I CCWWGG 1 cut(s) 351
Eco31I GGTCTC 1 cut(s) 341
Eco47I GGWCC 6 cut(s) 69, 355, 544, 553, 718, 745
Eco52I CGGCCG 2 cut(s) 404, 722
Eco57I CTGAAG 1 cut(s) 464
EcoRI GAATTC 1 cut(s) 869
EcoT14I CCWWGG 1 cut(s) 351
ErhI CCWWGG 1 cut(s) 351
FaeI CATG 4 cut(s) 19, 355, 424, 742
FaiI YATR 8 cut(s) 17, 41, 353, 422, 492, 740, 809, 831
FalI AAGNNNNNCTT 2 cut(s) 377, 409
FaqI GGGAC 1 cut(s) 659
FatI CATG 4 cut(s) 15, 351, 420, 738
FauI CCCGC 3 cut(s) 300, 306, 505
FbaI TGATCA 1 cut(s) 123
FokI GGATG 4 cut(s) 620, 746, 807, 827
FspBI CTAG 1 cut(s) 164
GlaI GCGC 8 cut(s) 53, 137, 168, 271, 273, 563, 656, 693
GsaI CCCAGC 1 cut(s) 843
GsuI CTGGAG 1 cut(s) 491
HaeII RGCGCY 2 cut(s) 55, 139
HaeIII GGCC 6 cut(s) 8, 291, 368, 406, 451, 724
HhaI GCGC 8 cut(s) 54, 138, 169, 272, 274, 564, 657, 694
Hin1II CATG 4 cut(s) 19, 355, 424, 742
Hin6I GCGC 8 cut(s) 52, 136, 167, 270, 272, 562, 655, 692
HinP1I GCGC 8 cut(s) 52, 136, 167, 270, 272, 562, 655, 692
HinfI GANTC 1 cut(s) 590
HphI GGTGA 2 cut(s) 50, 673
Hpy166II GTNNAC 4 cut(s) 358, 460, 507, 670
Hpy188I TCNGA 2 cut(s) 444, 681
Hpy188III TCNNGA 6 cut(s) 16, 202, 211, 314, 341, 619
Hpy8I GTNNAC 4 cut(s) 358, 460, 507, 670
Hpy99I CGWCG 3 cut(s) 347, 401, 419
HpyAV CCTTC 2 cut(s) 616, 773
HpyCH4IV ACGT 1 cut(s) 438
HpyCH4V TGCA 2 cut(s) 597, 883
HpyF3I CTNAG 2 cut(s) 315, 518
HpySE526I ACGT 1 cut(s) 438
Hsp92II CATG 4 cut(s) 19, 355, 424, 742
HspAI GCGC 8 cut(s) 52, 136, 167, 270, 272, 562, 655, 692
KpnI GGTACC 1 cut(s) 716
KroI GCCGGC 1 cut(s) 284
KroNI GCCGGC 1 cut(s) 286
Ksp22I TGATCA 1 cut(s) 123
Kzo9I GATC 8 cut(s) 123, 204, 327, 337, 371, 411, 567, 663
LguI GCTCTTC 2 cut(s) 158, 281
LmnI GCTCC 2 cut(s) 300, 784
Lsp1109I GCAGC 1 cut(s) 823
LweI GCATC 2 cut(s) 785, 805
MaeI CTAG 1 cut(s) 164
MaeII ACGT 1 cut(s) 438
MaeIII GTNAC 1 cut(s) 56
MalI GATC 8 cut(s) 125, 206, 329, 339, 373, 413, 569, 665
MbiI CCGCTC 1 cut(s) 295
MboI GATC 8 cut(s) 123, 204, 327, 337, 371, 411, 567, 663
MflI RGATCY 1 cut(s) 204
MlsI TGGCCA 1 cut(s) 8
MluCI AATT 1 cut(s) 869
MluNI TGGCCA 1 cut(s) 8
MlyI GAGTC 1 cut(s) 584
MmeI TCCRAC 2 cut(s) 408, 531
Mox20I TGGCCA 1 cut(s) 8
MreI CGCCGGCG 1 cut(s) 284
MroNI GCCGGC 1 cut(s) 284
MscI TGGCCA 1 cut(s) 8
Msp20I TGGCCA 1 cut(s) 8
MspR9I CCNGG 3 cut(s) 260, 453, 749
MvnI CGCG 9 cut(s) 77, 89, 169, 270, 272, 564, 588, 657, 692
NaeI GCCGGC 1 cut(s) 286
NciI CCSGG 3 cut(s) 260, 453, 749
NcoI CCATGG 1 cut(s) 351
NdeII GATC 8 cut(s) 123, 204, 327, 337, 371, 411, 567, 663
NgoMIV GCCGGC 1 cut(s) 284
NlaIII CATG 4 cut(s) 19, 355, 424, 742
NlaIV GGNNCC 1 cut(s) 714
NmeAIII GCCGAG 2 cut(s) 432, 459
NmuCI GTSAC 1 cut(s) 56
NspV TTCGAA 1 cut(s) 873
PagI TCATGA 1 cut(s) 15
PauI GCGCGC 1 cut(s) 270
PciSI GCTCTTC 2 cut(s) 158, 281
PcsI WCGNNNNNNNCGW 3 cut(s) 342, 396, 870
PdiI GCCGGC 1 cut(s) 286
PflFI GACNNNGTC 1 cut(s) 395
PinAI ACCGGT 2 cut(s) 546, 715
Ple19I CGATCG 1 cut(s) 330
PleI GAGTC 1 cut(s) 584
PpsI GAGTC 1 cut(s) 584
PshAI GACNNNNGTC 2 cut(s) 329, 353
PspFI CCCAGC 1 cut(s) 839
PspN4I GGNNCC 1 cut(s) 714
PspPI GGNCC 8 cut(s) 69, 290, 355, 450, 544, 553, 718, 745
PsuI RGATCY 1 cut(s) 204
PsyI GACNNNGTC 1 cut(s) 395
PteI GCGCGC 1 cut(s) 270
PvuI CGATCG 1 cut(s) 330
RsaI GTAC 4 cut(s) 389, 527, 584, 714
RsaNI GTAC 4 cut(s) 388, 526, 583, 713
Rsr2I CGGWCCG 3 cut(s) 69, 718, 745
RsrII CGGWCCG 3 cut(s) 69, 718, 745
SapI GCTCTTC 2 cut(s) 158, 281
Sau3AI GATC 8 cut(s) 123, 204, 327, 337, 371, 411, 567, 663
Sau96I GGNCC 8 cut(s) 69, 290, 355, 450, 544, 553, 718, 745
SchI GAGTC 1 cut(s) 584
ScrFI CCNGG 3 cut(s) 260, 453, 749
SetI ASST 5 cut(s) 153, 441, 480, 498, 606
SfaNI GCATC 2 cut(s) 785, 805
SfuI TTCGAA 1 cut(s) 873
SgrAI CRCCGGYG 1 cut(s) 284
SinI GGWCC 6 cut(s) 69, 355, 544, 553, 718, 745
SmlI CTYRAG 2 cut(s) 209, 649
SmoI CTYRAG 2 cut(s) 209, 649
Sse9I AATT 1 cut(s) 869
SspMI CTAG 1 cut(s) 164
StyD4I CCNGG 3 cut(s) 258, 451, 747
StyI CCWWGG 1 cut(s) 351
TaiI ACGT 1 cut(s) 441
TaqI TCGA 4 cut(s) 336, 342, 414, 873
TasI AATT 1 cut(s) 869
TauI GCSGC 9 cut(s) 77, 89, 98, 141, 270, 291, 304, 379, 451
TseFI GTSAC 1 cut(s) 56
TseI GCWGC 1 cut(s) 836
Tsp45I GTSAC 1 cut(s) 56
TspDTI ATGAA 2 cut(s) 4, 32
Tth111I GACNNNGTC 1 cut(s) 395
VpaK11BI GGWCC 6 cut(s) 69, 355, 544, 553, 718, 745
XapI RAATTY 1 cut(s) 869
XspI CTAG 1 cut(s) 164
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.