RLG00000024816

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

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_laevigata
Chr5
OG0002737
Physical Location & Seq
Reverse (-)
39340833 .. 39342953
2121 bp
Loading structure...
UTR
Exon/CDS
Intron
RLM00000024816

Sequence Viewer

Length: 903 bp
ATGGCGTCGGTGGGCCAGGCCGCGGAGGTGTACGAGCCGAAGCCACTCCAAGTCTGGCGAGCTCTGATGAACTGGTTGGGCTTCTTCTTCCAGATCATCGTTCAGATCCTCAGAGGCGCCCCCTGCCTCGCTCATTTCCTCTCCTACGTTCCTCTCCTCGCTTCTTCTCCTTCTTCTTCTTTCAGGCCCTTGCCCGTCAATGAAATCCCTCTCAACGACACGTCGTCCTCCGCCCACGCCAACCTCGAAAACGGCGTCGTAACCGACGATCACCGCCTTCAAAAGCTCACGGTAGTTCTTGACTTAGATGAGACGCTAGTGTGTGCCTATGAAACATCTAGCTTGCCTGCTATTGTTCGGACCCAAGCAACAGATGCTGGGTTGAAGTGGTTTGAGATAGAATGTGTATCTTCAGACAAGGAGTCTGATGGTAAACCGAAGATCAGTTATGTGACAGTGTTTGAACGTCCTGGTTTGCACGAGTTCTTGAAACGGATCTGTGAATTTGCTGATCTTGTCCTATTTACTGCTGGTCTTGAAGGATATGCTAGACCACTTGTTGACAGAATTGATGTGGAGAACAGATTTAAGCTTCGTCTTTATCGGCCGTCTACAGTTACAACGGAAAACCGGGATCATGTGAAAGATCTGTCTTGTATATCGAAAGATCTCTGTCGAATTGTTATCGTTGACAACAACCCATTTAGTTTTCTGCTGCAACCGGTGAATGGAGTTCCATGTATTCCGTTTTCTGCTGGACATCCATATGATGACCAGCTCTTGGAGGTGCTGCTTCCACTCCTCCAGCACCTCGCTCAGCAAAAGGATGTGAGGCCTGTGCTTTATGAGAGATTCCACATGCCCGAATGGTTTCAAATGCATGGAATTACTATTTCTGGTTAG

Protein Analysis

301

Amino Acids

33.85

Weight (kDa)

5.48

Isoelectric Point (pI)

36.16

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NIF PF03031 96 - 278 2.4e-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) 781
AccI GTMKAC 1 cut(s) 611
AccII CGCG 1 cut(s) 23
AciI CCGC 4 cut(s) 21, 23, 231, 274
AclWI GGATC 3 cut(s) 100, 503, 642
AcoI YGGCCR 1 cut(s) 605
AcsI RAATTY 1 cut(s) 503
AcuI CTGAAG 1 cut(s) 396
AcyI GRCGYC 3 cut(s) 5, 117, 255
AfaI GTAC 1 cut(s) 32
AfiI CCNNNNNNNGG 3 cut(s) 22, 728, 781
AflIII ACRYGT 1 cut(s) 219
AgeI ACCGGT 1 cut(s) 721
AgsI TTSAA 6 cut(s) 281, 385, 464, 490, 539, 875
AhdI GACNNNNNGTC 2 cut(s) 223, 421
AjiI CACGTC 1 cut(s) 222
AjnI CCWGG 2 cut(s) 15, 469
AluBI AGCT 5 cut(s) 62, 286, 342, 592, 778
AluI AGCT 5 cut(s) 62, 286, 342, 592, 778
Alw21I GWGCWC 1 cut(s) 64
Alw26I GTCTC 1 cut(s) 305
AlwI GGATC 3 cut(s) 100, 503, 642
AlwNI CAGNNNCTG 1 cut(s) 377
AoxI GGCC 5 cut(s) 13, 18, 185, 605, 833
ApeKI GCWGC 2 cut(s) 715, 790
ApoI RAATTY 1 cut(s) 503
ArsI GACNNNNNNTTYG 2 cut(s) 240, 272
AsiGI ACCGGT 1 cut(s) 721
Asp700I GAANNNNTTC 1 cut(s) 870
AspLEI GCGC 1 cut(s) 119
AspS9I GGNCC 3 cut(s) 13, 186, 360
AsuC2I CCSGG 1 cut(s) 632
AsuHPI GGTGA 2 cut(s) 263, 736
AvaII GGWCC 1 cut(s) 360
BanI GGYRCC 1 cut(s) 116
BanII GRGCYC 1 cut(s) 64
BauI CACGAG 1 cut(s) 479
Bbv12I GWGCWC 1 cut(s) 64
BbvI GCAGC 2 cut(s) 702, 777
BccI CCATC 1 cut(s) 422
BceAI ACGGC 2 cut(s) 268, 592
BciT130I CCWGG 2 cut(s) 17, 471
BcnI CCSGG 1 cut(s) 632
BcoDI GTCTC 1 cut(s) 305
BfaI CTAG 3 cut(s) 317, 339, 549
BfmI CTRYAG 1 cut(s) 612
BfoI RGCGCY 1 cut(s) 120
BglII AGATCT 2 cut(s) 646, 667
BisI GCNGC 3 cut(s) 21, 716, 791
BlpI GCTNAGC 1 cut(s) 816
BlsI GCNGC 3 cut(s) 22, 717, 792
Bme1390I CCNGG 3 cut(s) 17, 471, 632
Bme18I GGWCC 1 cut(s) 360
BmeRI GACNNNNNGTC 2 cut(s) 223, 421
BmgBI CACGTC 1 cut(s) 222
BmgT120I GGNCC 3 cut(s) 13, 186, 360
BmiI GGNNCC 2 cut(s) 118, 362
BmrFI CCNGG 3 cut(s) 17, 471, 632
BmsI GCATC 1 cut(s) 364
BpmI CTGGAG 1 cut(s) 788
Bpu1102I GCTNAGC 1 cut(s) 816
BpuMI CCSGG 1 cut(s) 632
BsaHI GRCGYC 3 cut(s) 5, 117, 255
BsaJI CCNNGG 1 cut(s) 21
BsaWI WCCGGW 1 cut(s) 721
Bsc4I CCNNNNNNNGG 3 cut(s) 22, 728, 781
Bse118I RCCGGY 1 cut(s) 721
Bse1I ACTGG 1 cut(s) 77
BseBI CCWGG 2 cut(s) 17, 471
BseDI CCNNGG 1 cut(s) 21
BseGI GGATG 2 cut(s) 760, 832
BseLI CCNNNNNNNGG 3 cut(s) 22, 728, 781
BseMII CTCAG 2 cut(s) 124, 830
BseNI ACTGG 1 cut(s) 77
BseRI GAGGAG 2 cut(s) 146, 791
BseX3I CGGCCG 1 cut(s) 605
BseXI GCAGC 2 cut(s) 702, 777
BseYI CCCAGC 1 cut(s) 377
Bsh1236I CGCG 1 cut(s) 23
Bsh1285I CGRYCG 1 cut(s) 608
BshFI GGCC 5 cut(s) 15, 20, 187, 607, 835
BshNI GGYRCC 1 cut(s) 116
BshTI ACCGGT 1 cut(s) 721
BsiEI CGRYCG 1 cut(s) 608
BsiHKAI GWGCWC 1 cut(s) 64
BsiSI CCGG 2 cut(s) 631, 722
BslI CCNNNNNNNGG 3 cut(s) 22, 728, 781
BsmAI GTCTC 1 cut(s) 305
BsmBI CGTCTC 1 cut(s) 305
BsnI GGCC 5 cut(s) 15, 20, 187, 607, 835
Bsp1286I GDGCHC 1 cut(s) 64
Bsp143I GATC 9 cut(s) 93, 105, 268, 441, 495, 511, 634, 646, 667
Bsp1720I GCTNAGC 1 cut(s) 816
BspACI CCGC 4 cut(s) 21, 23, 231, 274
BspANI GGCC 5 cut(s) 15, 20, 187, 607, 835
BspCNI CTCAG 2 cut(s) 123, 829
BspFNI CGCG 1 cut(s) 23
BspLI GGNNCC 2 cut(s) 118, 362
BspPI GGATC 3 cut(s) 100, 503, 642
BspT107I GGYRCC 1 cut(s) 116
BsrFI RCCGGY 1 cut(s) 721
BsrI ACTGG 1 cut(s) 77
BssAI RCCGGY 1 cut(s) 721
BssECI CCNNGG 1 cut(s) 21
BssMI GATC 9 cut(s) 93, 105, 268, 441, 495, 511, 634, 646, 667
BssNI GRCGYC 3 cut(s) 5, 117, 255
BssSI CACGAG 1 cut(s) 479
Bst2BI CACGAG 1 cut(s) 479
Bst2UI CCWGG 2 cut(s) 17, 471
Bst4CI ACNGT 3 cut(s) 292, 457, 616
BstACI GRCGYC 3 cut(s) 5, 117, 255
BstAPI GCANNNNNTGC 1 cut(s) 374
BstC8I GCNNGC 3 cut(s) 60, 344, 348
BstDEI CTNAG 3 cut(s) 110, 304, 816
BstDSI CCRYGG 1 cut(s) 21
BstF5I GGATG 2 cut(s) 760, 832
BstFNI CGCG 1 cut(s) 23
BstH2I RGCGCY 1 cut(s) 120
BstHHI GCGC 1 cut(s) 119
BstKTI GATC 9 cut(s) 96, 108, 271, 444, 498, 514, 637, 649, 670
BstMAI GTCTC 1 cut(s) 305
BstMBI GATC 9 cut(s) 93, 105, 268, 441, 495, 511, 634, 646, 667
BstMCI CGRYCG 1 cut(s) 608
BstMWI GCNNNNNNNGC 2 cut(s) 123, 374
BstNI CCWGG 2 cut(s) 17, 471
BstNSI RCATGY 1 cut(s) 862
BstSCI CCNGG 3 cut(s) 15, 469, 630
BstSFI CTRYAG 1 cut(s) 612
BstUI CGCG 1 cut(s) 23
BstV1I GCAGC 2 cut(s) 702, 777
BstX2I RGATCY 4 cut(s) 105, 495, 646, 667
BstYI RGATCY 4 cut(s) 105, 495, 646, 667
BstZI CGGCCG 1 cut(s) 605
BsuRI GGCC 5 cut(s) 15, 20, 187, 607, 835
BtgI CCRYGG 1 cut(s) 21
BtrI CACGTC 1 cut(s) 222
BtsCI GGATG 2 cut(s) 760, 832
BtsIMutI CAGTG 1 cut(s) 462
Cac8I GCNNGC 3 cut(s) 60, 344, 348
CaiI CAGNNNCTG 1 cut(s) 377
CfoI GCGC 1 cut(s) 119
Cfr10I RCCGGY 1 cut(s) 721
Cfr13I GGNCC 3 cut(s) 13, 186, 360
Cfr42I CCGCGG 1 cut(s) 24
CseI GACGC 2 cut(s) 244, 322
Csp6I GTAC 1 cut(s) 31
CspAI ACCGGT 1 cut(s) 721
CviAII CATG 4 cut(s) 638, 738, 859, 881
CviQI GTAC 1 cut(s) 31
DdeI CTNAG 3 cut(s) 110, 304, 816
DinI GGCGCC 1 cut(s) 118
DpnI GATC 9 cut(s) 95, 107, 270, 443, 497, 513, 636, 648, 669
DpnII GATC 9 cut(s) 93, 105, 268, 441, 495, 511, 634, 646, 667
DriI GACNNNNNGTC 2 cut(s) 223, 421
EaeI YGGCCR 1 cut(s) 605
EagI CGGCCG 1 cut(s) 605
Eam1105I GACNNNNNGTC 2 cut(s) 223, 421
EciI GGCGGA 1 cut(s) 220
Ecl136II GAGCTC 1 cut(s) 62
EclXI CGGCCG 1 cut(s) 605
Eco147I AGGCCT 1 cut(s) 835
Eco24I GRGCYC 1 cut(s) 64
Eco47I GGWCC 1 cut(s) 360
Eco52I CGGCCG 1 cut(s) 605
Eco53kI GAGCTC 1 cut(s) 62
Eco57I CTGAAG 1 cut(s) 396
EcoICRI GAGCTC 1 cut(s) 62
EcoO109I RGGNCCY 1 cut(s) 186
EcoRII CCWGG 2 cut(s) 15, 469
EcoT22I ATGCAT 1 cut(s) 882
EcoT38I GRGCYC 1 cut(s) 64
EgeI GGCGCC 1 cut(s) 118
EheI GGCGCC 1 cut(s) 118
Esp3I CGTCTC 1 cut(s) 305
FaeI CATG 4 cut(s) 641, 741, 862, 884
FatI CATG 4 cut(s) 637, 737, 858, 880
FauNDI CATATG 1 cut(s) 766
FblI GTMKAC 1 cut(s) 611
Fnu4HI GCNGC 3 cut(s) 21, 716, 791
FokI GGATG 2 cut(s) 747, 839
FriOI GRGCYC 1 cut(s) 64
Fsp4HI GCNGC 3 cut(s) 21, 716, 791
FspBI CTAG 3 cut(s) 317, 339, 549
GlaI GCGC 1 cut(s) 118
GluI GCNGC 3 cut(s) 21, 716, 791
GsaI CCCAGC 1 cut(s) 381
GsuI CTGGAG 1 cut(s) 788
HaeII RGCGCY 1 cut(s) 120
HaeIII GGCC 5 cut(s) 15, 20, 187, 607, 835
HapII CCGG 2 cut(s) 631, 722
HgaI GACGC 2 cut(s) 244, 322
HhaI GCGC 1 cut(s) 119
Hin1I GRCGYC 3 cut(s) 5, 117, 255
Hin1II CATG 4 cut(s) 641, 741, 862, 884
Hin6I GCGC 1 cut(s) 117
HinP1I GCGC 1 cut(s) 117
HincII GTYRAC 2 cut(s) 562, 691
HindII GTYRAC 2 cut(s) 562, 691
HindIII AAGCTT 1 cut(s) 590
HinfI GANTC 2 cut(s) 422, 852
HpaII CCGG 2 cut(s) 631, 722
HphI GGTGA 2 cut(s) 263, 736
Hpy166II GTNNAC 5 cut(s) 31, 434, 562, 612, 691
Hpy188I TCNGA 6 cut(s) 66, 105, 113, 360, 415, 427
Hpy188III TCNNGA 4 cut(s) 91, 299, 487, 536
Hpy8I GTNNAC 5 cut(s) 31, 434, 562, 612, 691
Hpy99I CGWCG 4 cut(s) 10, 226, 260, 269
HpyAV CCTTC 3 cut(s) 180, 287, 533
HpyCH4III ACNGT 3 cut(s) 292, 457, 616
HpyCH4IV ACGT 3 cut(s) 147, 221, 466
HpyCH4V TGCA 3 cut(s) 478, 718, 880
HpyF10VI GCNNNNNNNGC 2 cut(s) 123, 374
HpyF3I CTNAG 3 cut(s) 110, 304, 816
HpySE526I ACGT 3 cut(s) 147, 221, 466
Hsp92I GRCGYC 3 cut(s) 5, 117, 255
Hsp92II CATG 4 cut(s) 641, 741, 862, 884
HspAI GCGC 1 cut(s) 117
KasI GGCGCC 1 cut(s) 116
KspI CCGCGG 1 cut(s) 24
Kzo9I GATC 9 cut(s) 93, 105, 268, 441, 495, 511, 634, 646, 667
Lsp1109I GCAGC 2 cut(s) 702, 777
LweI GCATC 1 cut(s) 364
MaeI CTAG 3 cut(s) 317, 339, 549
MaeII ACGT 3 cut(s) 147, 221, 466
MaeIII GTNAC 3 cut(s) 259, 451, 616
MalI GATC 9 cut(s) 95, 107, 270, 443, 497, 513, 636, 648, 669
MboI GATC 9 cut(s) 93, 105, 268, 441, 495, 511, 634, 646, 667
MboII GAAGA 7 cut(s) 76, 79, 156, 165, 168, 402, 451
MflI RGATCY 4 cut(s) 105, 495, 646, 667
MhlI GDGCHC 1 cut(s) 64
MluCI AATT 4 cut(s) 503, 567, 678, 885
Mly113I GGCGCC 1 cut(s) 117
MlyI GAGTC 1 cut(s) 431
Mph1103I ATGCAT 1 cut(s) 882
MroXI GAANNNNTTC 1 cut(s) 870
MseI TTAA 1 cut(s) 588
MslI CAYNNNNRTG 1 cut(s) 765
MspA1I CMGCKG 1 cut(s) 23
MspI CCGG 2 cut(s) 631, 722
MspR9I CCNGG 3 cut(s) 17, 471, 632
MvaI CCWGG 2 cut(s) 17, 471
MvnI CGCG 1 cut(s) 23
MwoI GCNNNNNNNGC 2 cut(s) 123, 374
NarI GGCGCC 1 cut(s) 117
NciI CCSGG 1 cut(s) 632
NdeI CATATG 1 cut(s) 766
NdeII GATC 9 cut(s) 93, 105, 268, 441, 495, 511, 634, 646, 667
NlaIII CATG 4 cut(s) 641, 741, 862, 884
NlaIV GGNNCC 2 cut(s) 118, 362
NmuCI GTSAC 1 cut(s) 451
NsiI ATGCAT 1 cut(s) 882
NspI RCATGY 1 cut(s) 862
PceI AGGCCT 1 cut(s) 835
PcsI WCGNNNNNNNCGW 3 cut(s) 243, 252, 264
PdmI GAANNNNTTC 1 cut(s) 870
PfeI GAWTC 1 cut(s) 852
PflMI CCANNNNNTGG 1 cut(s) 781
PinAI ACCGGT 1 cut(s) 721
PkrI GCNGC 3 cut(s) 22, 717, 792
PleI GAGTC 1 cut(s) 430
PluTI GGCGCC 1 cut(s) 120
PpsI GAGTC 1 cut(s) 430
Psp124BI GAGCTC 1 cut(s) 64
Psp6I CCWGG 2 cut(s) 15, 469
PspFI CCCAGC 1 cut(s) 377
PspGI CCWGG 2 cut(s) 15, 469
PspN4I GGNNCC 2 cut(s) 118, 362
PspPI GGNCC 3 cut(s) 13, 186, 360
PstNI CAGNNNCTG 1 cut(s) 377
PsuI RGATCY 4 cut(s) 105, 495, 646, 667
RsaI GTAC 1 cut(s) 32
RsaNI GTAC 1 cut(s) 31
RseI CAYNNNNRTG 1 cut(s) 765
SacI GAGCTC 1 cut(s) 64
SacII CCGCGG 1 cut(s) 24
SaqAI TTAA 1 cut(s) 588
SatI GCNGC 3 cut(s) 21, 716, 791
Sau3AI GATC 9 cut(s) 93, 105, 268, 441, 495, 511, 634, 646, 667
Sau96I GGNCC 3 cut(s) 13, 186, 360
SchI GAGTC 1 cut(s) 431
ScrFI CCNGG 3 cut(s) 17, 471, 632
SduI GDGCHC 1 cut(s) 64
SfaNI GCATC 1 cut(s) 364
SfcI CTRYAG 1 cut(s) 612
SfoI GGCGCC 1 cut(s) 118
Sfr303I CCGCGG 1 cut(s) 24
SgrBI CCGCGG 1 cut(s) 24
SinI GGWCC 1 cut(s) 360
SmiMI CAYNNNNRTG 1 cut(s) 765
Sse9I AATT 4 cut(s) 503, 567, 678, 885
SseBI AGGCCT 1 cut(s) 835
SsiI CCGC 4 cut(s) 21, 23, 231, 274
SspDI GGCGCC 1 cut(s) 116
SspMI CTAG 3 cut(s) 317, 339, 549
SstI GAGCTC 1 cut(s) 64
StuI AGGCCT 1 cut(s) 835
StyD4I CCNGG 3 cut(s) 15, 469, 630
TaaI ACNGT 3 cut(s) 292, 457, 616
TaiI ACGT 3 cut(s) 150, 224, 469
TaqI TCGA 3 cut(s) 246, 662, 676
TasI AATT 4 cut(s) 503, 567, 678, 885
TauI GCSGC 1 cut(s) 23
TfiI GAWTC 1 cut(s) 852
Tru1I TTAA 1 cut(s) 588
Tru9I TTAA 1 cut(s) 588
TscAI CASTG 1 cut(s) 462
TseFI GTSAC 1 cut(s) 451
TseI GCWGC 2 cut(s) 715, 790
Tsp45I GTSAC 1 cut(s) 451
TspDTI ATGAA 3 cut(s) 83, 216, 345
TspGWI ACGGA 3 cut(s) 508, 638, 735
TspRI CASTG 1 cut(s) 462
Van91I CCANNNNNTGG 1 cut(s) 781
VpaK11BI GGWCC 1 cut(s) 360
XapI RAATTY 1 cut(s) 503
XceI RCATGY 1 cut(s) 862
XcmI CCANNNNNNNNNTGG 1 cut(s) 51
XmiI GTMKAC 1 cut(s) 611
XmnI GAANNNNTTC 1 cut(s) 870
XspI CTAG 3 cut(s) 317, 339, 549
Zsp2I ATGCAT 1 cut(s) 882
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.