Rorug03G0068800

RNA polymerase II C-terminal domain phosphatase-like 4

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000003
OG0009676
Physical Location & Seq
Reverse (-)
5308261 .. 5311196
2936 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug03G0068800.1

Sequence Viewer

Length: 795 bp
ATGGGTTCCATCATTCTTTTTGTGCAGAAAGATATTCAAGGGAGGCTTGACAAAGAACAAGCGGTTCTTTGCTTTGCTCAGCTCACCGGCATTGATGCAGATAGGGAAACTCTATGTTGGATATTATGTGGCTATGAAAGGGTTCTATGCTTTGCTTATCGGCATTGGGGTCGGAATTCATGGTGTCCTACTTTTCATAACATTGATTGGAAAGGTGTGGTGAACTTATTTAGTATTCTACCAGCACTTGCTATGTTCAATGATGCTGAAAAGAACGGCTTATTAACTCCTGGAGTGGTTAATCCAACATCAGGAAACATGAGAATCAGCATGGCTTTTATGGCCGCAATGAAAGGGTACAAGATGGTTTTGACCACGCCGTCTTACACGAGCTTGGAGAGAAGAATGTGTATAAGAGCCTTAGGAGCTGAGTTGATTCTCACTGACCCTCCAAAAGGGATGGGAGGAACTGTCAAGAAGGCTTATGACCTTTTAGAATCCACTCCAAATGCCCTTATGCTCCAACAATTCTCAAACCCTGTCAATACTCAGGACCAGAGATATGGGAGGATACTAATGGAAAAGTTAACATCTTTTGATGGGAATTGGTCCTCATTCGATTACTGGAAATGGGGTTGGATTCAAACCCAATATATTGGACATGGACATAATGCATGGAAAGAGTTCTTGAGCTACTTCATGTATATGATTTCGCTGACAAAGTCTTCAACACCAATGGTAACTCTTGACTTGATACTTACCTTCTTCATCGAACATGCATACTCTGTGCAGTAA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
No pathways identified.
Pfam Domains
Protein Families
NIF

Protein Analysis

264

Amino Acids

30.19

Weight (kDa)

8.16

Isoelectric Point (pI)

29.89

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
PALP PF00291 80 - 188 6.8e-16 Pyridoxal-phosphate dependent enzyme
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

Species Filter
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Publication-ready
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AasI GACNNNNNNGTC 1 cut(s) 379
AciI CCGC 2 cut(s) 62, 345
AcoI YGGCCR 1 cut(s) 342
AcsI RAATTY 1 cut(s) 175
AfaI GTAC 1 cut(s) 359
AfiI CCNNNNNNNGG 2 cut(s) 311, 455
AgsI TTSAA 4 cut(s) 38, 259, 644, 729
AjnI CCWGG 1 cut(s) 289
AluBI AGCT 4 cut(s) 82, 393, 428, 693
AluI AGCT 4 cut(s) 82, 393, 428, 693
AoxI GGCC 1 cut(s) 342
ApoI RAATTY 1 cut(s) 175
Asp700I GAANNNNTTC 2 cut(s) 141, 683
AspS9I GGNCC 2 cut(s) 553, 609
AsuHPI GGTGA 2 cut(s) 76, 232
AvaII GGWCC 2 cut(s) 553, 609
AxyI CCTNAGG 1 cut(s) 421
BauI CACGAG 1 cut(s) 388
BbsI GAAGAC 1 cut(s) 717
BccI CCATC 4 cut(s) 17, 358, 454, 593
BceAI ACGGC 2 cut(s) 292, 364
BcgI CGANNNNNNTGC 2 cut(s) 152, 186
BciT130I CCWGG 1 cut(s) 291
BciVI GTATCC 1 cut(s) 564
BfuI GTATCC 1 cut(s) 564
BisI GCNGC 1 cut(s) 345
BlpI GCTNAGC 1 cut(s) 78
BlsI GCNGC 1 cut(s) 346
Bme1390I CCNGG 1 cut(s) 291
Bme18I GGWCC 2 cut(s) 553, 609
BmgT120I GGNCC 2 cut(s) 553, 609
BmiI GGNNCC 1 cut(s) 7
BmrFI CCNGG 1 cut(s) 291
BmsI GCATC 2 cut(s) 85, 253
BpiI GAAGAC 1 cut(s) 717
BpmI CTGGAG 1 cut(s) 312
Bpu1102I GCTNAGC 1 cut(s) 78
BpuEI CTTGAG 1 cut(s) 709
BsaXI ACNNNNNCTCC 4 cut(s) 433, 456, 463, 486
Bsc4I CCNNNNNNNGG 2 cut(s) 311, 455
Bse118I RCCGGY 1 cut(s) 86
Bse1I ACTGG 1 cut(s) 629
Bse21I CCTNAGG 1 cut(s) 421
Bse3DI GCAATG 1 cut(s) 354
BseBI CCWGG 1 cut(s) 291
BseGI GGATG 1 cut(s) 465
BseLI CCNNNNNNNGG 2 cut(s) 311, 455
BseMI GCAATG 1 cut(s) 354
BseMII CTCAG 3 cut(s) 92, 420, 563
BseNI ACTGG 1 cut(s) 629
BsgI GTGCAG 1 cut(s) 44
BshFI GGCC 1 cut(s) 344
BsiSI CCGG 1 cut(s) 87
BslI CCNNNNNNNGG 2 cut(s) 311, 455
BsnI GGCC 1 cut(s) 344
Bsp1720I GCTNAGC 1 cut(s) 78
BspACI CCGC 2 cut(s) 62, 345
BspANI GGCC 1 cut(s) 344
BspCNI CTCAG 3 cut(s) 91, 421, 562
BspLI GGNNCC 1 cut(s) 7
BsrDI GCAATG 1 cut(s) 354
BsrFI RCCGGY 1 cut(s) 86
BsrI ACTGG 1 cut(s) 629
BssAI RCCGGY 1 cut(s) 86
BssSI CACGAG 1 cut(s) 388
Bst2BI CACGAG 1 cut(s) 388
Bst2UI CCWGG 1 cut(s) 291
Bst4CI ACNGT 1 cut(s) 472
BstDEI CTNAG 4 cut(s) 78, 421, 429, 549
BstENI CCTNNNNNAGG 1 cut(s) 453
BstF5I GGATG 1 cut(s) 465
BstMWI GCNNNNNNNGC 2 cut(s) 341, 425
BstNI CCWGG 1 cut(s) 291
BstNSI RCATGY 1 cut(s) 779
BstSCI CCNGG 1 cut(s) 289
BstV2I GAAGAC 1 cut(s) 717
BstXI CCANNNNNNTGG 2 cut(s) 563, 656
Bsu36I CCTNAGG 1 cut(s) 421
BsuI GTATCC 1 cut(s) 564
BsuRI GGCC 1 cut(s) 344
BtsCI GGATG 1 cut(s) 465
BtsIMutI CAGTG 1 cut(s) 441
Cfr10I RCCGGY 1 cut(s) 86
Cfr13I GGNCC 2 cut(s) 553, 609
Csp6I GTAC 1 cut(s) 358
CviAII CATG 7 cut(s) 180, 319, 331, 662, 675, 700, 776
CviQI GTAC 1 cut(s) 358
DdeI CTNAG 4 cut(s) 78, 421, 429, 549
DrdI GACNNNNNNGTC 1 cut(s) 379
DseDI GACNNNNNNGTC 1 cut(s) 379
EaeI YGGCCR 1 cut(s) 342
Eco47I GGWCC 2 cut(s) 553, 609
Eco81I CCTNAGG 1 cut(s) 421
EcoNI CCTNNNNNAGG 1 cut(s) 453
EcoRI GAATTC 1 cut(s) 175
EcoRII CCWGG 1 cut(s) 289
EcoT22I ATGCAT 2 cut(s) 676, 781
FaeI CATG 7 cut(s) 183, 322, 334, 665, 678, 703, 779
FalI AAGNNNNNCTT 6 cut(s) 30, 62, 51, 83, 263, 295
FatI CATG 7 cut(s) 179, 318, 330, 661, 674, 699, 775
Fnu4HI GCNGC 1 cut(s) 345
FokI GGATG 1 cut(s) 472
Fsp4HI GCNGC 1 cut(s) 345
GluI GCNGC 1 cut(s) 345
GsuI CTGGAG 1 cut(s) 312
HaeIII GGCC 1 cut(s) 344
HapII CCGG 1 cut(s) 87
Hin1II CATG 7 cut(s) 183, 322, 334, 665, 678, 703, 779
HincII GTYRAC 1 cut(s) 588
HindII GTYRAC 1 cut(s) 588
HinfI GANTC 4 cut(s) 324, 436, 497, 640
HpaI GTTAAC 1 cut(s) 588
HpaII CCGG 1 cut(s) 87
HphI GGTGA 2 cut(s) 76, 232
Hpy166II GTNNAC 2 cut(s) 223, 588
Hpy188I TCNGA 1 cut(s) 174
Hpy188III TCNNGA 5 cut(s) 312, 475, 551, 688, 746
Hpy8I GTNNAC 2 cut(s) 223, 588
HpyAV CCTTC 2 cut(s) 472, 772
HpyCH4III ACNGT 1 cut(s) 472
HpyCH4V TGCA 5 cut(s) 25, 98, 674, 779, 790
HpyF10VI GCNNNNNNNGC 2 cut(s) 341, 425
HpyF3I CTNAG 4 cut(s) 78, 421, 429, 549
Hsp92II CATG 7 cut(s) 183, 322, 334, 665, 678, 703, 779
KspAI GTTAAC 1 cut(s) 588
LmnI GCTCC 2 cut(s) 425, 525
LpnPI CCDG 9 cut(s) 100, 255, 276, 297, 303, 536, 552, 569, 610
LweI GCATC 2 cut(s) 85, 253
MaeIII GTNAC 1 cut(s) 739
MboII GAAGA 3 cut(s) 414, 717, 757
MluCI AATT 3 cut(s) 175, 527, 604
MmeI TCCRAC 5 cut(s) 98, 152, 329, 547, 617
MnlI CCTC 5 cut(s) 36, 458, 459, 561, 622
Mph1103I ATGCAT 2 cut(s) 676, 781
MroXI GAANNNNTTC 2 cut(s) 141, 683
MseI TTAA 3 cut(s) 284, 300, 587
MslI CAYNNNNRTG 1 cut(s) 704
MspI CCGG 1 cut(s) 87
MspR9I CCNGG 1 cut(s) 291
MvaI CCWGG 1 cut(s) 291
MwoI GCNNNNNNNGC 2 cut(s) 341, 425
NlaIII CATG 7 cut(s) 183, 322, 334, 665, 678, 703, 779
NlaIV GGNNCC 1 cut(s) 7
NsiI ATGCAT 2 cut(s) 676, 781
NspI RCATGY 1 cut(s) 779
PdmI GAANNNNTTC 2 cut(s) 141, 683
PfeI GAWTC 4 cut(s) 324, 436, 497, 640
PflFI GACNNNGTC 1 cut(s) 721
PfoI TCCNGGA 1 cut(s) 289
PkrI GCNGC 1 cut(s) 346
Psp6I CCWGG 1 cut(s) 289
PspGI CCWGG 1 cut(s) 289
PspN4I GGNNCC 1 cut(s) 7
PspPI GGNCC 2 cut(s) 553, 609
PsyI GACNNNGTC 1 cut(s) 721
RsaI GTAC 1 cut(s) 359
RsaNI GTAC 1 cut(s) 358
RseI CAYNNNNRTG 1 cut(s) 704
SaqAI TTAA 3 cut(s) 284, 300, 587
SatI GCNGC 1 cut(s) 345
Sau96I GGNCC 2 cut(s) 553, 609
ScrFI CCNGG 1 cut(s) 291
SetI ASST 7 cut(s) 84, 217, 395, 430, 492, 695, 764
SfaNI GCATC 2 cut(s) 85, 253
SinI GGWCC 2 cut(s) 553, 609
SmiMI CAYNNNNRTG 1 cut(s) 704
SmlI CTYRAG 1 cut(s) 688
SmoI CTYRAG 1 cut(s) 688
Sse9I AATT 3 cut(s) 175, 527, 604
SsiI CCGC 2 cut(s) 62, 345
StyD4I CCNGG 1 cut(s) 289
TaaI ACNGT 1 cut(s) 472
TaqI TCGA 2 cut(s) 618, 771
TasI AATT 3 cut(s) 175, 527, 604
TauI GCSGC 1 cut(s) 347
TfiI GAWTC 4 cut(s) 324, 436, 497, 640
Tru1I TTAA 3 cut(s) 284, 300, 587
Tru9I TTAA 3 cut(s) 284, 300, 587
TscAI CASTG 1 cut(s) 448
TspDTI ATGAA 6 cut(s) 150, 168, 185, 365, 688, 757
TspRI CASTG 1 cut(s) 448
Tth111I GACNNNGTC 1 cut(s) 721
VpaK11BI GGWCC 2 cut(s) 553, 609
XagI CCTNNNNNAGG 1 cut(s) 453
XapI RAATTY 1 cut(s) 175
XceI RCATGY 1 cut(s) 779
XmnI GAANNNNTTC 2 cut(s) 141, 683
Zsp2I ATGCAT 2 cut(s) 676, 781
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.