Rw6G013660

RNA polymerase II C-terminal domain phosphatase-like

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr6
Physical Location & Seq
Forward (+)
25253131 .. 25254372
1242 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw6G013660.1

Sequence Viewer

Length: 1161 bp
ATGAGTGTGGCTACCGTCTCTCCGATTTTACATAATATTGATAACCTTGTTGGGTATCTCAAGAGGGGACGAGGGTTGGATTCTGATTACAGTGACCTAGGATTGCTAGATCACAGGGCCAAAAGGCTTAAGGTAGAGACTGATGTGGGAATTTCACAAGAGGCAAGATTTGCTTTTGATGAAAAACCCATGTCTGCTGAAGTGAGATTTGGGTATATACCCAAGGGGTTGGTGCTTAGGGATGACGAAATTGATCGATTACGCAATGAAAACACTAGGAATTTATTGTTGAACCATAAGAAACTTCATCTGGTTCTTGATCTAGACCACACCCTGCTGAATACCACTTTCCTTGATCAGATGTCACCCGACGAAGAATATCTTAAGACCCAAACCCAGTCTGATCATTCTCTGCAATATGTTCACATTGTGGACACCCCCAGTAGGCAACTGATGACCAAGTTGAGGCCTTATGTTAGGACGTTTTTAGTGCAAGCCAGTCAAATGTTTGAGATGTCCATATACACGATGGGTAATCGAGATTATGCGCTAGAAATGGCCAAGTTGCTTGATCCTGGAAATCTTATCTTTGGTGGTAGAGTCATGTCCCGTGATGATAGCACAGAAACAAATAGAAAGAGTCTAGATGTCCTGCTTGCCCGAGATTCTGCTGTTGTGATCCTTGATGATAGGAAAAATGTATGGACAAATGACAACAGGGACAATGTAATAACTGATGAATGTGATCGTTATGGAGGAGCTTATCTTGCAAATGTACTTCAACTTCTTGGATATATTCACACCATATTCTTTAATGAAGTTGAGATACAGGGGTGGGATCTTATGGACAGAGATGTGAGGCACGTCCTGAAATTCCTGAAGAAGGAAGTCTTGAAGGACTGTAAAATTGTTTTCAGCCATGTATTCCCCTCAAATGTCGAGGCTGATACTCATCCTTTGTGGAAGATGGCGGAGCAGCTGGGCGCTACTTGTTCAACACAAGTCGATCCATCAGTCACACATGTGGTTGCAGCAAATGCTCGAACACAGAAATCGTGTTGGGCAGTTAAAGAAGGAAAGTTTTTGGTGAATCCTCAATGGATTCATAGTGCAAATTTTATGTGGCAAAAGCAACCTGAAGATAATTTTCCCTGTCATTAG

Protein Analysis

386

Amino Acids

44.4

Weight (kDa)

5.97

Isoelectric Point (pI)

36.84

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
NIF PF03031 103 - 244 1.1e-22 NLI interacting factor-like phosphatase
BRCT PF00533 296 - 368 7.1e-09 BRCA1 C Terminus (BRCT) domain
PTCB-BRCT PF12738 315 - 367 1.5e-06 twin BRCT domain
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready

Orthologous Genes (Group: OG0000221)

Species Orthologous Gene IDs
arabidopsis_thaliana AT5G58003 AT5G58003 AT5G58003
fragaria_vesca FvH4_1g01060 FvH4_1g01060 FvH4_1g01060 FvH4_1g01060 FvH4_2g05941 FvH4_7g02340 FvH4_7g02631 FvH4_7g02801 FvH4_7g07841 FvH4_7g08260
malus_domestica MD09G1131300.v1.1
prunus_persica Prupe.7G261400_v2.0.a1 Prupe.7G261400_v2.0.a1 Prupe.7G261400_v2.0.a1 Prupe.7G261400_v2.0.a1 Prupe.7G261400_v2.0.a1 Prupe.7G261400_v2.0.a1
pyrus_communis pycom09g05350
rosa_chinensis RchiOBHm_Chr1g0324741 RchiOBHm_Chr2g0085821 RchiOBHm_Chr2g0147611 RchiOBHm_Chr4g0392421 RchiOBHm_Chr6g0254001 RchiOBHm_Chr6g0256111 RchiOBHm_Chr6g0256201 RchiOBHm_Chr6g0256301 RchiOBHm_Chr6g0257451 RchiOBHm_Chr6g0267911 RchiOBHm_Chr6g0276921 RchiOBHm_Chr7g0234511 RchiOBHm_Chr7g0234521 RchiOBHm_Chr7g0234531 RchiOBHm_Chr7g0234711 RchiOBHm_Chr7g0234721 RchiOBHm_Chr7g0234801 RchiOBHm_Chr7g0234841 RchiOBHm_Chr7g0234851
rosa_laevigata RLG00000001210 RLG00000001218 RLG00000013348 RLG00000013351 RLG00000013354 RLG00000013969 RLG00000014699 RLG00000014794 RLG00000014949 RLG00000015721 RLG00000030176 RLG00000030180 RLG00000030183
rosa_multiflora Rmu_sc0000434.1_g000006 Rmu_sc0001716.1_g000020 Rmu_sc0001800.1_g000011 Rmu_sc0001913.1_g000023 Rmu_sc0003301.1_g000015 Rmu_sc0003882.1_g000010 Rmu_sc0005080.1_g000013 Rmu_sc0006724.1_g000007 Rmu_sc0006759.1_g000001 Rmu_sc0006859.1_g000001 Rmu_sc0007217.1_g000009 Rmu_sc0010500.1_g000001 Rmu_sc0015353.1_g000005 Rmu_sc0017253.1_g000006 Rmu_sc0021133.1_g000001 Rmu_sc0033202.1_g000001
rosa_roxburghii Rroxscaffold_2G00155020 Rroxscaffold_4G00325270 Rroxscaffold_7G00200340 Rroxscaffold_7G00211310
rosa_rugosa Rorug01G0046400 Rorug01G0463600 Rorug05G0571900 Rorug05G0572300 Rorug06G0034600 Rorug07G0285100 Rorug07G0285400 Rorug07G0285500 Rorug07G0285600
rosa_samantha Rh1AG063200 Rh1AG063800 Rh1DG069200 Rh1DG070400 Rh2AG012600 Rh2BG013300 Rh2DG015000 Rh4AG042600 Rh4BG037500 Rh4CG045400 Rh4CG045600 Rh6AG065400 Rh6AG082000 Rh6AG082100 Rh6AG089900 Rh6AG156900 Rh6AG157000 Rh6AG157200 Rh6AG214900 Rh6AG215000 Rh6AG215200 Rh6AG291000 Rh6BG058300 Rh6BG074200 Rh6BG074300 Rh6BG081300 Rh6BG158100 Rh6BG158400 Rh6BG158700 Rh6BG219800 Rh6CG058400 Rh6CG071100 Rh6CG078000 Rh6CG157400 Rh6CG158100 Rh6CG222400 Rh6DG055200 Rh6DG068500 Rh6DG073700 Rh6DG143300 Rh6DG143700 Rh6DG144100 Rh6DG212600 Rh7AG440200 Rh7AG440300 Rh7BG413100 Rh7CG461400 Rh7CG461500 Rh7CG461900 Rh7CG462000 Rh7DG429900
rosa_wichuraiana Rw1G005350 Rw2G001120 Rw4G003330 Rw6G005760 Rw6G007140 Rw6G007840 Rw6G013630 Rw6G013660 Rw6G018800 Rw6G025060 Rw7G036540 Rw7G036580 Rw7G036600

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AciI CCGC 1 cut(s) 971
AclWI GGATC 4 cut(s) 566, 673, 846, 1001
AcoI YGGCCR 1 cut(s) 558
AcsI RAATTY 4 cut(s) 150, 280, 872, 1114
AcuI CTGAAG 3 cut(s) 219, 899, 1158
AdeI CACNNNGTG 1 cut(s) 430
AfaI GTAC 1 cut(s) 777
AfiI CCNNNNNNNGG 3 cut(s) 444, 465, 883
AflII CTTAAG 2 cut(s) 128, 383
AflIII ACRYGT 1 cut(s) 1021
AgsI TTSAA 4 cut(s) 292, 782, 895, 996
AjiI CACGTC 1 cut(s) 865
AjnI CCWGG 1 cut(s) 574
AjuI GAANNNNNNNTTGG 2 cut(s) 192, 224
AleI CACNNNNGTG 1 cut(s) 1022
AluBI AGCT 2 cut(s) 761, 979
AluI AGCT 2 cut(s) 761, 979
Alw26I GTCTC 2 cut(s) 22, 131
AlwI GGATC 4 cut(s) 566, 673, 846, 1001
Ama87I CYCGRG 1 cut(s) 660
AoxI GGCC 3 cut(s) 117, 467, 558
ApeKI GCWGC 2 cut(s) 976, 1031
ApoI RAATTY 4 cut(s) 150, 280, 872, 1114
AspA2I CCTAGG 1 cut(s) 97
AspLEI GCGC 2 cut(s) 550, 986
AspS9I GGNCC 1 cut(s) 117
AsuHPI GGTGA 2 cut(s) 357, 1099
AvaI CYCGRG 1 cut(s) 660
AvrII CCTAGG 1 cut(s) 97
BaeI ACNNNNGTAYC 2 cut(s) 818, 851
BalI TGGCCA 1 cut(s) 560
BarI GAAGNNNNNNTAC 4 cut(s) 768, 800, 810, 842
BbvI GCAGC 2 cut(s) 988, 1043
BccI CCATC 3 cut(s) 523, 961, 1018
BciT130I CCWGG 1 cut(s) 576
BclI TGATCA 2 cut(s) 355, 403
BcoDI GTCTC 2 cut(s) 22, 131
BfaI CTAG 6 cut(s) 98, 107, 276, 323, 551, 644
BfoI RGCGCY 1 cut(s) 987
BfrI CTTAAG 2 cut(s) 128, 383
BisI GCNGC 2 cut(s) 977, 1032
BlnI CCTAGG 1 cut(s) 97
BlsI GCNGC 2 cut(s) 978, 1033
Bme1390I CCNGG 1 cut(s) 576
BmeT110I CYCGRG 1 cut(s) 660
BmgBI CACGTC 1 cut(s) 865
BmgT120I GGNCC 1 cut(s) 117
BmrFI CCNGG 1 cut(s) 576
BmrI ACTGGG 2 cut(s) 391, 435
BmuI ACTGGG 2 cut(s) 391, 435
Bpu10I CCTNAGC 1 cut(s) 236
BpuEI CTTGAG 1 cut(s) 44
Bsa29I ATCGAT 1 cut(s) 256
BsaBI GATNNNNATC 1 cut(s) 951
BsaJI CCNNGG 2 cut(s) 97, 222
BsaXI ACNNNNNCTCC 1 cut(s) 34
Bsc4I CCNNNNNNNGG 3 cut(s) 444, 465, 883
Bse1I ACTGG 3 cut(s) 397, 441, 498
Bse3DI GCAATG 1 cut(s) 271
Bse8I GATNNNNATC 1 cut(s) 951
BseBI CCWGG 1 cut(s) 576
BseCI ATCGAT 1 cut(s) 256
BseDI CCNNGG 2 cut(s) 97, 222
BseGI GGATG 2 cut(s) 247, 952
BseJI GATNNNNATC 1 cut(s) 951
BseLI CCNNNNNNNGG 3 cut(s) 444, 465, 883
BseMI GCAATG 1 cut(s) 271
BseNI ACTGG 3 cut(s) 397, 441, 498
BseRI GAGGAG 1 cut(s) 771
BseXI GCAGC 2 cut(s) 988, 1043
BseYI CCCAGC 1 cut(s) 979
BshFI GGCC 3 cut(s) 119, 469, 560
BshVI ATCGAT 1 cut(s) 256
BsiHKCI CYCGRG 1 cut(s) 660
BslFI GGGAC 3 cut(s) 81, 592, 734
BslI CCNNNNNNNGG 3 cut(s) 444, 465, 883
BsmAI GTCTC 2 cut(s) 22, 131
BsmBI CGTCTC 1 cut(s) 22
BsmFI GGGAC 3 cut(s) 81, 592, 734
BsnI GGCC 3 cut(s) 119, 469, 560
BsoBI CYCGRG 1 cut(s) 660
BspACI CCGC 1 cut(s) 971
BspANI GGCC 3 cut(s) 119, 469, 560
BspDI ATCGAT 1 cut(s) 256
BspPI GGATC 4 cut(s) 566, 673, 846, 1001
BspTI CTTAAG 2 cut(s) 128, 383
BsrDI GCAATG 1 cut(s) 271
BsrI ACTGG 3 cut(s) 397, 441, 498
BssECI CCNNGG 2 cut(s) 97, 222
BssT1I CCWWGG 2 cut(s) 97, 222
Bst2UI CCWGG 1 cut(s) 576
Bst4CI ACNGT 3 cut(s) 16, 92, 902
BstAFI CTTAAG 2 cut(s) 128, 383
BstAPI GCANNNNNTGC 2 cut(s) 170, 1037
BstC8I GCNNGC 2 cut(s) 495, 657
BstDEI CTNAG 1 cut(s) 236
BstENI CCTNNNNNAGG 1 cut(s) 881
BstF5I GGATG 2 cut(s) 247, 952
BstH2I RGCGCY 1 cut(s) 987
BstHHI GCGC 2 cut(s) 550, 986
BstMAI GTCTC 2 cut(s) 22, 131
BstMWI GCNNNNNNNGC 3 cut(s) 170, 767, 1037
BstNI CCWGG 1 cut(s) 576
BstNSI RCATGY 1 cut(s) 1025
BstSCI CCNGG 1 cut(s) 574
BstV1I GCAGC 2 cut(s) 988, 1043
BstX2I RGATCY 1 cut(s) 838
BstXI CCANNNNNNTGG 1 cut(s) 229
BstYI RGATCY 1 cut(s) 838
Bsu15I ATCGAT 1 cut(s) 256
BsuRI GGCC 3 cut(s) 119, 469, 560
BsuTUI ATCGAT 1 cut(s) 256
BtrI CACGTC 1 cut(s) 865
BtsCI GGATG 2 cut(s) 247, 952
BtsIMutI CAGTG 1 cut(s) 97
Cac8I GCNNGC 2 cut(s) 495, 657
CfoI GCGC 2 cut(s) 550, 986
Cfr13I GGNCC 1 cut(s) 117
ClaI ATCGAT 1 cut(s) 256
Csp6I GTAC 1 cut(s) 776
CspCI CAANNNNNGTGG 2 cut(s) 334, 369
CviAII CATG 4 cut(s) 190, 604, 920, 1022
CviQI GTAC 1 cut(s) 776
DdeI CTNAG 1 cut(s) 236
DraIII CACNNNGTG 1 cut(s) 430
EaeI YGGCCR 1 cut(s) 558
EciI GGCGGA 1 cut(s) 986
Eco130I CCWWGG 2 cut(s) 97, 222
Eco147I AGGCCT 1 cut(s) 469
Eco57I CTGAAG 3 cut(s) 219, 899, 1158
Eco88I CYCGRG 1 cut(s) 660
EcoNI CCTNNNNNAGG 1 cut(s) 881
EcoRII CCWGG 1 cut(s) 574
EcoT14I CCWWGG 2 cut(s) 97, 222
ErhI CCWWGG 2 cut(s) 97, 222
Esp3I CGTCTC 1 cut(s) 22
FaeI CATG 4 cut(s) 193, 607, 923, 1025
FalI AAGNNNNNCTT 6 cut(s) 157, 189, 366, 398, 875, 907
FaqI GGGAC 3 cut(s) 81, 592, 734
FatI CATG 4 cut(s) 189, 603, 919, 1021
FbaI TGATCA 2 cut(s) 355, 403
Fnu4HI GCNGC 2 cut(s) 977, 1032
FokI GGATG 2 cut(s) 254, 939
Fsp4HI GCNGC 2 cut(s) 977, 1032
FspBI CTAG 6 cut(s) 98, 107, 276, 323, 551, 644
GlaI GCGC 2 cut(s) 549, 985
GluI GCNGC 2 cut(s) 977, 1032
GsaI CCCAGC 1 cut(s) 983
HaeII RGCGCY 1 cut(s) 987
HaeIII GGCC 3 cut(s) 119, 469, 560
HhaI GCGC 2 cut(s) 550, 986
Hin1II CATG 4 cut(s) 193, 607, 923, 1025
Hin6I GCGC 2 cut(s) 548, 984
HinP1I GCGC 2 cut(s) 548, 984
HinfI GANTC 6 cut(s) 80, 600, 640, 665, 1090, 1102
HphI GGTGA 2 cut(s) 357, 1099
Hpy166II GTNNAC 2 cut(s) 424, 433
Hpy188I TCNGA 4 cut(s) 24, 85, 360, 403
Hpy188III TCNNGA 8 cut(s) 61, 317, 323, 539, 644, 868, 877, 892
Hpy8I GTNNAC 2 cut(s) 424, 433
Hpy99I CGWCG 1 cut(s) 374
HpyAV CCTTC 3 cut(s) 877, 889, 1067
HpyCH4III ACNGT 3 cut(s) 16, 92, 902
HpyCH4IV ACGT 2 cut(s) 482, 864
HpyCH4V TGCA 5 cut(s) 415, 493, 770, 1031, 1112
HpyF10VI GCNNNNNNNGC 3 cut(s) 170, 767, 1037
HpyF3I CTNAG 1 cut(s) 236
HpySE526I ACGT 2 cut(s) 482, 864
Hsp92II CATG 4 cut(s) 193, 607, 923, 1025
HspAI GCGC 2 cut(s) 548, 984
Ksp22I TGATCA 2 cut(s) 355, 403
LmnI GCTCC 2 cut(s) 758, 973
Lsp1109I GCAGC 2 cut(s) 988, 1043
MaeI CTAG 6 cut(s) 98, 107, 276, 323, 551, 644
MaeII ACGT 2 cut(s) 482, 864
MaeIII GTNAC 3 cut(s) 92, 363, 1015
MboII GAAGA 4 cut(s) 386, 892, 976, 1151
MflI RGATCY 1 cut(s) 838
MlsI TGGCCA 1 cut(s) 560
MluCI AATT 7 cut(s) 150, 249, 280, 872, 906, 1114, 1144
MluNI TGGCCA 1 cut(s) 560
MlyI GAGTC 2 cut(s) 609, 649
MmeI TCCRAC 1 cut(s) 57
MnlI CCTC 9 cut(s) 57, 65, 154, 459, 749, 852, 934, 940, 1104
Mox20I TGGCCA 1 cut(s) 560
MscI TGGCCA 1 cut(s) 560
MseI TTAA 4 cut(s) 129, 384, 813, 1068
MslI CAYNNNNRTG 1 cut(s) 1022
Msp20I TGGCCA 1 cut(s) 560
MspA1I CMGCKG 1 cut(s) 979
MspCI CTTAAG 2 cut(s) 128, 383
MspR9I CCNGG 1 cut(s) 576
MvaI CCWGG 1 cut(s) 576
MwoI GCNNNNNNNGC 3 cut(s) 170, 767, 1037
NlaIII CATG 4 cut(s) 193, 607, 923, 1025
NmuCI GTSAC 3 cut(s) 92, 363, 1015
NspI RCATGY 1 cut(s) 1025
OliI CACNNNNGTG 1 cut(s) 1022
PceI AGGCCT 1 cut(s) 469
PciI ACATGT 1 cut(s) 1021
PfeI GAWTC 4 cut(s) 80, 665, 1090, 1102
PfoI TCCNGGA 1 cut(s) 574
PkrI GCNGC 2 cut(s) 978, 1033
PleI GAGTC 2 cut(s) 608, 648
PpsI GAGTC 2 cut(s) 608, 648
PscI ACATGT 1 cut(s) 1021
Psp6I CCWGG 1 cut(s) 574
PspFI CCCAGC 1 cut(s) 979
PspGI CCWGG 1 cut(s) 574
PspPI GGNCC 1 cut(s) 117
PsuI RGATCY 1 cut(s) 838
PvuII CAGCTG 1 cut(s) 979
RsaI GTAC 1 cut(s) 777
RsaNI GTAC 1 cut(s) 776
RseI CAYNNNNRTG 1 cut(s) 1022
SaqAI TTAA 4 cut(s) 129, 384, 813, 1068
SatI GCNGC 2 cut(s) 977, 1032
Sau96I GGNCC 1 cut(s) 117
SchI GAGTC 2 cut(s) 609, 649
ScrFI CCNGG 1 cut(s) 576
SetI ASST 8 cut(s) 48, 99, 135, 485, 763, 867, 981, 1138
SmiMI CAYNNNNRTG 1 cut(s) 1022
SmlI CTYRAG 3 cut(s) 59, 128, 383
SmoI CTYRAG 3 cut(s) 59, 128, 383
Sse9I AATT 7 cut(s) 150, 249, 280, 872, 906, 1114, 1144
SseBI AGGCCT 1 cut(s) 469
SsiI CCGC 1 cut(s) 971
SspI AATATT 1 cut(s) 37
SspMI CTAG 6 cut(s) 98, 107, 276, 323, 551, 644
StuI AGGCCT 1 cut(s) 469
StyD4I CCNGG 1 cut(s) 574
StyI CCWWGG 2 cut(s) 97, 222
TaaI ACNGT 3 cut(s) 16, 92, 902
TaiI ACGT 2 cut(s) 485, 867
TaqI TCGA 5 cut(s) 256, 538, 939, 1005, 1042
TasI AATT 7 cut(s) 150, 249, 280, 872, 906, 1114, 1144
TatI WGTACW 1 cut(s) 775
TfiI GAWTC 4 cut(s) 80, 665, 1090, 1102
Tru1I TTAA 4 cut(s) 129, 384, 813, 1068
Tru9I TTAA 4 cut(s) 129, 384, 813, 1068
TscAI CASTG 1 cut(s) 97
TseFI GTSAC 3 cut(s) 92, 363, 1015
TseI GCWGC 2 cut(s) 976, 1031
Tsp45I GTSAC 3 cut(s) 92, 363, 1015
TspDTI ATGAA 6 cut(s) 195, 282, 296, 753, 831, 1094
TspRI CASTG 1 cut(s) 97
Vha464I CTTAAG 2 cut(s) 128, 383
XagI CCTNNNNNAGG 1 cut(s) 881
XapI RAATTY 4 cut(s) 150, 280, 872, 1114
XbaI TCTAGA 2 cut(s) 322, 643
XceI RCATGY 1 cut(s) 1025
XcmI CCANNNNNNNNNTGG 1 cut(s) 526
XmaJI CCTAGG 1 cut(s) 97
XspI CTAG 6 cut(s) 98, 107, 276, 323, 551, 644
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.