Rh3DG124700

Carboxy-terminal domain RNA polymerase II polypeptide A small phosphatase 1-like

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr3D
OG0002737
Physical Location & Seq
Forward (+)
10543555 .. 10546300
2746 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh3DG124700.1

Sequence Viewer

Length: 906 bp
ATGGCGTCGGTGGGCCAGGCCGCGGAGGTGTACGAGCCGAAGCCACTCCAAGTCTGGCGAGCTATGATGAACTGGTTGGGCTTCTTCTTCCAGATCATCGTTCAGATCCTCAGAGGCGCCCCCTGCCTCGCTCATTTCCTGTCGTACGTTCCTCTTCTCGCTTCTTCTTCTTCTTCTTCTTCTTTCAGGCCCTTGCCGGTCAGTGAAATCCCTCTCAACGACACGTCGTCCTCCGCTCACGCCAATCTCGAAAACGGCGTCGTAACCGACGATCACCGCCTTCAAAAGCTCACGGTAGTTCTTGACTTAGATGAGACGCTAGTGTGTGCGTACGAAACATCTAGCTTGCCTGCTATTGTTCGGACCCAAGCAACGGATGCTGGGTTGAAGTGGTTTGAGATAGAATGTGTATCTTCAGACAAGGAGTCTGATGGTAAACCGAAGATCAGTTATGTGACAGTGTTTGAACGTCCTGGTTTGCACGAGTTCTTGAAACGGATTTGTGAATTTGCTGATCTTGTCCTATTTACTGCTGGTCTTGAAGGTTATGCTAGGCCACTTGTTGACAGAATTGATTTGGAGAACAGATTTAAGCTTCGTCTTTATCGGCCTTCTACAGTTACCACGGAAAACCGGGATCATGTGAAAGATCTGTCTTGTATATCGAAAGATCTCTGTCGAATTGTTATTGTTGACAACAACCCATTTAGTTTTCTGCTGCAACCGGTGAATGGAGTTCCATGTATTCCGTTTTCTGCTGGACATCCATATGATGACCAGCTCTTGGAGGTGCTGCTTCCACTCCTCCAGCACCTCGCCCAGCAAAAGGATGTGAGGCCTGTGCTTTATGAGAGATTCCACATGCCCGAATGGTTTCAAATGCATGGAATTACTATTTCTGGTTAG

Protein Analysis

301

Amino Acids

33.93

Weight (kDa)

5.48

Isoelectric Point (pI)

36.44

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NIF PF03031 97 - 279 2.8e-42 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)
AccB1I GGYRCC 1 cut(s) 116
AccB7I CCANNNNNTGG 1 cut(s) 784
AccBSI CCGCTC 1 cut(s) 236
AccII CGCG 1 cut(s) 23
AciI CCGC 4 cut(s) 21, 23, 234, 277
AclWI GGATC 2 cut(s) 100, 645
AcsI RAATTY 1 cut(s) 506
AcuI CTGAAG 1 cut(s) 399
AcyI GRCGYC 3 cut(s) 5, 117, 258
AfaI GTAC 3 cut(s) 32, 146, 332
AfiI CCNNNNNNNGG 5 cut(s) 22, 373, 731, 784, 826
AflIII ACRYGT 1 cut(s) 222
AgeI ACCGGT 1 cut(s) 724
AgsI TTSAA 6 cut(s) 284, 388, 467, 493, 542, 878
AhdI GACNNNNNGTC 2 cut(s) 226, 424
AjiI CACGTC 1 cut(s) 225
AjnI CCWGG 2 cut(s) 15, 472
AluBI AGCT 5 cut(s) 62, 289, 345, 595, 781
AluI AGCT 5 cut(s) 62, 289, 345, 595, 781
Alw26I GTCTC 1 cut(s) 308
AlwI GGATC 2 cut(s) 100, 645
AoxI GGCC 6 cut(s) 13, 18, 188, 554, 608, 836
ApeKI GCWGC 2 cut(s) 718, 793
ApoI RAATTY 1 cut(s) 506
ArsI GACNNNNNNTTYG 2 cut(s) 243, 275
AsiGI ACCGGT 1 cut(s) 724
Asp700I GAANNNNTTC 1 cut(s) 873
AspLEI GCGC 1 cut(s) 119
AspS9I GGNCC 3 cut(s) 13, 189, 363
AsuC2I CCSGG 1 cut(s) 635
AsuHPI GGTGA 2 cut(s) 266, 739
AvaII GGWCC 1 cut(s) 363
BanI GGYRCC 1 cut(s) 116
BauI CACGAG 1 cut(s) 482
BbvI GCAGC 2 cut(s) 705, 780
BccI CCATC 1 cut(s) 425
BceAI ACGGC 1 cut(s) 271
BciT130I CCWGG 2 cut(s) 17, 474
BcnI CCSGG 1 cut(s) 635
BcoDI GTCTC 1 cut(s) 308
BfaI CTAG 3 cut(s) 320, 342, 552
BfmI CTRYAG 1 cut(s) 615
BfoI RGCGCY 1 cut(s) 120
BglII AGATCT 2 cut(s) 649, 670
BisI GCNGC 3 cut(s) 21, 719, 794
BlsI GCNGC 3 cut(s) 22, 720, 795
Bme1390I CCNGG 3 cut(s) 17, 474, 635
Bme18I GGWCC 1 cut(s) 363
BmeRI GACNNNNNGTC 2 cut(s) 226, 424
BmgBI CACGTC 1 cut(s) 225
BmgT120I GGNCC 3 cut(s) 13, 189, 363
BmiI GGNNCC 2 cut(s) 118, 365
BmrFI CCNGG 3 cut(s) 17, 474, 635
BmsI GCATC 1 cut(s) 367
BpmI CTGGAG 1 cut(s) 791
BpuMI CCSGG 1 cut(s) 635
BsaHI GRCGYC 3 cut(s) 5, 117, 258
BsaJI CCNNGG 2 cut(s) 21, 624
BsaWI WCCGGW 1 cut(s) 724
Bsc4I CCNNNNNNNGG 5 cut(s) 22, 373, 731, 784, 826
Bse118I RCCGGY 2 cut(s) 196, 724
Bse1I ACTGG 1 cut(s) 77
BseBI CCWGG 2 cut(s) 17, 474
BseDI CCNNGG 2 cut(s) 21, 624
BseGI GGATG 3 cut(s) 382, 763, 835
BseLI CCNNNNNNNGG 5 cut(s) 22, 373, 731, 784, 826
BseMII CTCAG 1 cut(s) 124
BseNI ACTGG 1 cut(s) 77
BseRI GAGGAG 1 cut(s) 794
BseXI GCAGC 2 cut(s) 705, 780
BseYI CCCAGC 2 cut(s) 380, 819
Bsh1236I CGCG 1 cut(s) 23
BshFI GGCC 6 cut(s) 15, 20, 190, 556, 610, 838
BshNI GGYRCC 1 cut(s) 116
BshTI ACCGGT 1 cut(s) 724
BsiSI CCGG 3 cut(s) 197, 634, 725
BsiWI CGTACG 2 cut(s) 144, 330
BslI CCNNNNNNNGG 5 cut(s) 22, 373, 731, 784, 826
BsmAI GTCTC 1 cut(s) 308
BsmBI CGTCTC 1 cut(s) 308
BsnI GGCC 6 cut(s) 15, 20, 190, 556, 610, 838
Bsp143I GATC 8 cut(s) 93, 105, 271, 444, 514, 637, 649, 670
BspACI CCGC 4 cut(s) 21, 23, 234, 277
BspANI GGCC 6 cut(s) 15, 20, 190, 556, 610, 838
BspCNI CTCAG 1 cut(s) 123
BspFNI CGCG 1 cut(s) 23
BspLI GGNNCC 2 cut(s) 118, 365
BspPI GGATC 2 cut(s) 100, 645
BspT107I GGYRCC 1 cut(s) 116
BsrBI CCGCTC 1 cut(s) 236
BsrFI RCCGGY 2 cut(s) 196, 724
BsrI ACTGG 1 cut(s) 77
BssAI RCCGGY 2 cut(s) 196, 724
BssECI CCNNGG 2 cut(s) 21, 624
BssMI GATC 8 cut(s) 93, 105, 271, 444, 514, 637, 649, 670
BssNI GRCGYC 3 cut(s) 5, 117, 258
BssSI CACGAG 1 cut(s) 482
Bst2BI CACGAG 1 cut(s) 482
Bst2UI CCWGG 2 cut(s) 17, 474
Bst4CI ACNGT 3 cut(s) 295, 460, 619
Bst6I CTCTTC 1 cut(s) 159
BstACI GRCGYC 3 cut(s) 5, 117, 258
BstAPI GCANNNNNTGC 1 cut(s) 377
BstC8I GCNNGC 3 cut(s) 60, 347, 351
BstDEI CTNAG 2 cut(s) 110, 307
BstDSI CCRYGG 2 cut(s) 21, 624
BstF5I GGATG 3 cut(s) 382, 763, 835
BstFNI CGCG 1 cut(s) 23
BstH2I RGCGCY 1 cut(s) 120
BstHHI GCGC 1 cut(s) 119
BstKTI GATC 8 cut(s) 96, 108, 274, 447, 517, 640, 652, 673
BstMAI GTCTC 1 cut(s) 308
BstMBI GATC 8 cut(s) 93, 105, 271, 444, 514, 637, 649, 670
BstMWI GCNNNNNNNGC 2 cut(s) 123, 377
BstNI CCWGG 2 cut(s) 17, 474
BstNSI RCATGY 1 cut(s) 865
BstSCI CCNGG 3 cut(s) 15, 472, 633
BstSFI CTRYAG 1 cut(s) 615
BstUI CGCG 1 cut(s) 23
BstV1I GCAGC 2 cut(s) 705, 780
BstX2I RGATCY 3 cut(s) 105, 649, 670
BstYI RGATCY 3 cut(s) 105, 649, 670
BsuRI GGCC 6 cut(s) 15, 20, 190, 556, 610, 838
BtgI CCRYGG 2 cut(s) 21, 624
BtrI CACGTC 1 cut(s) 225
BtsCI GGATG 3 cut(s) 382, 763, 835
BtsIMutI CAGTG 2 cut(s) 208, 465
Cac8I GCNNGC 3 cut(s) 60, 347, 351
CfoI GCGC 1 cut(s) 119
Cfr10I RCCGGY 2 cut(s) 196, 724
Cfr13I GGNCC 3 cut(s) 13, 189, 363
Cfr42I CCGCGG 1 cut(s) 24
CseI GACGC 2 cut(s) 247, 325
Csp6I GTAC 3 cut(s) 31, 145, 331
CspAI ACCGGT 1 cut(s) 724
CviAII CATG 4 cut(s) 641, 741, 862, 884
CviQI GTAC 3 cut(s) 31, 145, 331
DdeI CTNAG 2 cut(s) 110, 307
DinI GGCGCC 1 cut(s) 118
DpnI GATC 8 cut(s) 95, 107, 273, 446, 516, 639, 651, 672
DpnII GATC 8 cut(s) 93, 105, 271, 444, 514, 637, 649, 670
DriI GACNNNNNGTC 2 cut(s) 226, 424
Eam1104I CTCTTC 1 cut(s) 159
Eam1105I GACNNNNNGTC 2 cut(s) 226, 424
EarI CTCTTC 1 cut(s) 159
Eco147I AGGCCT 1 cut(s) 838
Eco47I GGWCC 1 cut(s) 363
Eco57I CTGAAG 1 cut(s) 399
EcoO109I RGGNCCY 1 cut(s) 189
EcoRII CCWGG 2 cut(s) 15, 472
EcoT22I ATGCAT 1 cut(s) 885
EgeI GGCGCC 1 cut(s) 118
EheI GGCGCC 1 cut(s) 118
Esp3I CGTCTC 1 cut(s) 308
FaeI CATG 4 cut(s) 644, 744, 865, 887
FatI CATG 4 cut(s) 640, 740, 861, 883
FauNDI CATATG 1 cut(s) 769
Fnu4HI GCNGC 3 cut(s) 21, 719, 794
FokI GGATG 3 cut(s) 389, 750, 842
Fsp4HI GCNGC 3 cut(s) 21, 719, 794
FspBI CTAG 3 cut(s) 320, 342, 552
GlaI GCGC 1 cut(s) 118
GluI GCNGC 3 cut(s) 21, 719, 794
GsaI CCCAGC 2 cut(s) 384, 823
GsuI CTGGAG 1 cut(s) 791
HaeII RGCGCY 1 cut(s) 120
HaeIII GGCC 6 cut(s) 15, 20, 190, 556, 610, 838
HapII CCGG 3 cut(s) 197, 634, 725
HgaI GACGC 2 cut(s) 247, 325
HhaI GCGC 1 cut(s) 119
Hin1I GRCGYC 3 cut(s) 5, 117, 258
Hin1II CATG 4 cut(s) 644, 744, 865, 887
Hin6I GCGC 1 cut(s) 117
HinP1I GCGC 1 cut(s) 117
HincII GTYRAC 2 cut(s) 565, 694
HindII GTYRAC 2 cut(s) 565, 694
HindIII AAGCTT 1 cut(s) 593
HinfI GANTC 2 cut(s) 425, 855
HpaII CCGG 3 cut(s) 197, 634, 725
HphI GGTGA 2 cut(s) 266, 739
Hpy166II GTNNAC 4 cut(s) 31, 437, 565, 694
Hpy188I TCNGA 5 cut(s) 105, 113, 363, 418, 430
Hpy188III TCNNGA 5 cut(s) 91, 248, 302, 490, 539
Hpy8I GTNNAC 4 cut(s) 31, 437, 565, 694
Hpy99I CGWCG 4 cut(s) 10, 229, 263, 272
HpyAV CCTTC 3 cut(s) 290, 536, 621
HpyCH4III ACNGT 3 cut(s) 295, 460, 619
HpyCH4IV ACGT 3 cut(s) 147, 224, 469
HpyCH4V TGCA 3 cut(s) 481, 721, 883
HpyF10VI GCNNNNNNNGC 2 cut(s) 123, 377
HpyF3I CTNAG 2 cut(s) 110, 307
HpySE526I ACGT 3 cut(s) 147, 224, 469
Hsp92I GRCGYC 3 cut(s) 5, 117, 258
Hsp92II CATG 4 cut(s) 644, 744, 865, 887
HspAI GCGC 1 cut(s) 117
KasI GGCGCC 1 cut(s) 116
KspI CCGCGG 1 cut(s) 24
Kzo9I GATC 8 cut(s) 93, 105, 271, 444, 514, 637, 649, 670
Lsp1109I GCAGC 2 cut(s) 705, 780
LweI GCATC 1 cut(s) 367
MaeI CTAG 3 cut(s) 320, 342, 552
MaeII ACGT 3 cut(s) 147, 224, 469
MaeIII GTNAC 3 cut(s) 262, 454, 619
MalI GATC 8 cut(s) 95, 107, 273, 446, 516, 639, 651, 672
MbiI CCGCTC 1 cut(s) 236
MboI GATC 8 cut(s) 93, 105, 271, 444, 514, 637, 649, 670
MflI RGATCY 3 cut(s) 105, 649, 670
MluCI AATT 4 cut(s) 506, 570, 681, 888
Mly113I GGCGCC 1 cut(s) 117
MlyI GAGTC 1 cut(s) 434
Mph1103I ATGCAT 1 cut(s) 885
MroXI GAANNNNTTC 1 cut(s) 873
MseI TTAA 1 cut(s) 591
MslI CAYNNNNRTG 1 cut(s) 768
MspA1I CMGCKG 1 cut(s) 23
MspI CCGG 3 cut(s) 197, 634, 725
MspR9I CCNGG 3 cut(s) 17, 474, 635
MvaI CCWGG 2 cut(s) 17, 474
MvnI CGCG 1 cut(s) 23
MwoI GCNNNNNNNGC 2 cut(s) 123, 377
NarI GGCGCC 1 cut(s) 117
NciI CCSGG 1 cut(s) 635
NdeI CATATG 1 cut(s) 769
NdeII GATC 8 cut(s) 93, 105, 271, 444, 514, 637, 649, 670
NlaIII CATG 4 cut(s) 644, 744, 865, 887
NlaIV GGNNCC 2 cut(s) 118, 365
NmuCI GTSAC 1 cut(s) 454
NsiI ATGCAT 1 cut(s) 885
NspI RCATGY 1 cut(s) 865
PceI AGGCCT 1 cut(s) 838
PcsI WCGNNNNNNNCGW 3 cut(s) 246, 255, 267
PdmI GAANNNNTTC 1 cut(s) 873
PfeI GAWTC 1 cut(s) 855
Pfl23II CGTACG 2 cut(s) 144, 330
PflMI CCANNNNNTGG 1 cut(s) 784
PinAI ACCGGT 1 cut(s) 724
PkrI GCNGC 3 cut(s) 22, 720, 795
PleI GAGTC 1 cut(s) 433
PluTI GGCGCC 1 cut(s) 120
PpsI GAGTC 1 cut(s) 433
Psp6I CCWGG 2 cut(s) 15, 472
PspFI CCCAGC 2 cut(s) 380, 819
PspGI CCWGG 2 cut(s) 15, 472
PspLI CGTACG 2 cut(s) 144, 330
PspN4I GGNNCC 2 cut(s) 118, 365
PspPI GGNCC 3 cut(s) 13, 189, 363
PsuI RGATCY 3 cut(s) 105, 649, 670
RsaI GTAC 3 cut(s) 32, 146, 332
RsaNI GTAC 3 cut(s) 31, 145, 331
RseI CAYNNNNRTG 1 cut(s) 768
SacII CCGCGG 1 cut(s) 24
SaqAI TTAA 1 cut(s) 591
SatI GCNGC 3 cut(s) 21, 719, 794
Sau3AI GATC 8 cut(s) 93, 105, 271, 444, 514, 637, 649, 670
Sau96I GGNCC 3 cut(s) 13, 189, 363
SchI GAGTC 1 cut(s) 434
ScrFI CCNGG 3 cut(s) 17, 474, 635
SfaNI GCATC 1 cut(s) 367
SfcI CTRYAG 1 cut(s) 615
SfoI GGCGCC 1 cut(s) 118
Sfr303I CCGCGG 1 cut(s) 24
SgrBI CCGCGG 1 cut(s) 24
SinI GGWCC 1 cut(s) 363
SmiMI CAYNNNNRTG 1 cut(s) 768
Sse9I AATT 4 cut(s) 506, 570, 681, 888
SseBI AGGCCT 1 cut(s) 838
SsiI CCGC 4 cut(s) 21, 23, 234, 277
SspDI GGCGCC 1 cut(s) 116
SspMI CTAG 3 cut(s) 320, 342, 552
StuI AGGCCT 1 cut(s) 838
StyD4I CCNGG 3 cut(s) 15, 472, 633
TaaI ACNGT 3 cut(s) 295, 460, 619
TaiI ACGT 3 cut(s) 150, 227, 472
TaqI TCGA 3 cut(s) 249, 665, 679
TasI AATT 4 cut(s) 506, 570, 681, 888
TauI GCSGC 1 cut(s) 23
TfiI GAWTC 1 cut(s) 855
Tru1I TTAA 1 cut(s) 591
Tru9I TTAA 1 cut(s) 591
TscAI CASTG 2 cut(s) 208, 465
TseFI GTSAC 1 cut(s) 454
TseI GCWGC 2 cut(s) 718, 793
Tsp45I GTSAC 1 cut(s) 454
TspDTI ATGAA 1 cut(s) 83
TspGWI ACGGA 4 cut(s) 389, 511, 641, 738
TspRI CASTG 2 cut(s) 208, 465
Van91I CCANNNNNTGG 1 cut(s) 784
VpaK11BI GGWCC 1 cut(s) 363
XapI RAATTY 1 cut(s) 506
XceI RCATGY 1 cut(s) 865
XcmI CCANNNNNNNNNTGG 1 cut(s) 51
XmnI GAANNNNTTC 1 cut(s) 873
XspI CTAG 3 cut(s) 320, 342, 552
Zsp2I ATGCAT 1 cut(s) 885
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.