Rorug02G0040800

Cleavage and polyadenylation specificity factor subunit

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_rugosa
GWHBQTZ00000002
OG0012542
Physical Location & Seq
Reverse (-)
3205683 .. 3208923
3241 bp
Loading structure...
UTR
Exon/CDS
Intron
Rorug02G0040800.1

Sequence Viewer

Length: 936 bp
ATGAAGGGGGAAGTGCAGCTAGAACCAGTAGTTGCGGAACGGGAACCGAACCCTAGTAGTGACTTGGACCCTCTGCTCCAGGACGACGACGACGAGTCGTCGTCTCCGGCGAGCTCCAGTGAGATTAGGAATGAAGACCTTGAGAATGGCTCCTCCATTGCTTGTTGTCGCATTTGCCTCGAAAGCGATGCTGAACCAGGGGATGAGTTGATTTCACCATGCTTGTGCAAAGGCACACAGCAGTTTGTGCATAGCTCCTGTCTTGATCACTGGCGCTCTGTTAAGGAAGGATTTGCCTTCTCGCACTGCACTACTTGCAAAGCCCAATTTCATCTTCGAGTTGAATCATATGAGGACAACTCTTGGCGTAAAATAAAATTCAGAATTTTTGTGGCAAGGGATGTTTTCCTTGTATTTGTGGCTGTACAAACAATAATTGCTGCAATTGGTGGCTTTGCATATCTGATGGACAAAGATGGCGCCTTCAGGAATTCATTCAGTGATGGTTGGGATCGTATCTTGTCAAAACACCCTATACCATTTTATTATTGCATAGGGGTCTTGGCGTTTTTTGTGCTGCTTGGGTTTTTTGGGCTTATACTACACTGTTCAGCCTTCAATAGCAATGACCCACGGATGGCTGGCTGCCAGAACTGTTGTTATGGATGGGGAATATTGGATTGTTTCCCTGCGTCTATGGAGGCATGCTTTGCCCTGGTTATTGTTTTTGTTGTCATCTTTGCTATTCTTGGCATAGCTTATGGTTTCCTGGCTGCTACTATGGCTATTCAGAGAATCTGGCAGAGACATTACCACATCCTGACCAAGAGGGAACTCACGAAGGAGTACATAGTGGAGGATCTTCATGGTTGTTACACCCCACCAAAGTTGGATCCTGAACATGAAGAGCGTCTGAAAATGCTCAAGTTATTGTAG
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03015 map03015
Pfam Domains
Protein Families
NUDIX_2

Protein Analysis

311

Amino Acids

35.14

Weight (kDa)

5.21

Isoelectric Point (pI)

45.2

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RINGv PF12906 56 - 106 7.2e-11 RING-variant 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
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Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AccB1I GGYRCC 1 cut(s) 479
AciI CCGC 1 cut(s) 35
AclWI GGATC 4 cut(s) 519, 867, 887, 900
AcsI RAATTY 3 cut(s) 377, 384, 490
AcuI CTGAAG 1 cut(s) 469
AcyI GRCGYC 1 cut(s) 480
AfaI GTAC 2 cut(s) 426, 848
AfiI CCNNNNNNNGG 1 cut(s) 637
AgsI TTSAA 2 cut(s) 344, 619
AhdI GACNNNNNGTC 2 cut(s) 94, 97
AjnI CCWGG 4 cut(s) 78, 196, 714, 768
AjuI GAANNNNNNNTTGG 2 cut(s) 318, 350
AluBI AGCT 4 cut(s) 19, 114, 255, 758
AluI AGCT 4 cut(s) 19, 114, 255, 758
Alw21I GWGCWC 1 cut(s) 116
Alw26I GTCTC 2 cut(s) 108, 799
AlwI GGATC 4 cut(s) 519, 867, 887, 900
ApeKI GCWGC 5 cut(s) 16, 440, 577, 645, 773
ApoI RAATTY 3 cut(s) 377, 384, 490
Asp700I GAANNNNTTC 1 cut(s) 494
AspLEI GCGC 2 cut(s) 276, 482
AspS9I GGNCC 1 cut(s) 67
AsuHPI GGTGA 1 cut(s) 207
AvaII GGWCC 1 cut(s) 67
BamHI GGATCC 1 cut(s) 892
BanI GGYRCC 1 cut(s) 479
BanII GRGCYC 1 cut(s) 116
BbsI GAAGAC 1 cut(s) 141
Bbv12I GWGCWC 1 cut(s) 116
BbvI GCAGC 5 cut(s) 28, 427, 564, 632, 760
BccI CCATC 5 cut(s) 460, 470, 497, 631, 660
BcgI CGANNNNNNTGC 4 cut(s) 160, 170, 194, 204
BciT130I CCWGG 4 cut(s) 80, 198, 716, 770
BclI TGATCA 1 cut(s) 265
BcoDI GTCTC 2 cut(s) 108, 799
BfaI CTAG 2 cut(s) 20, 54
BfoI RGCGCY 2 cut(s) 277, 483
BisI GCNGC 5 cut(s) 17, 441, 578, 646, 774
BlsI GCNGC 5 cut(s) 18, 442, 579, 647, 775
Bme1390I CCNGG 4 cut(s) 80, 198, 716, 770
Bme18I GGWCC 1 cut(s) 67
BmeRI GACNNNNNGTC 2 cut(s) 94, 97
BmgT120I GGNCC 1 cut(s) 67
BmiI GGNNCC 5 cut(s) 45, 69, 151, 481, 894
BmrFI CCNGG 4 cut(s) 80, 198, 716, 770
BmsI GCATC 1 cut(s) 178
BpiI GAAGAC 1 cut(s) 141
BplI GAGNNNNNCTC 4 cut(s) 134, 166, 344, 376
BpmI CTGGAG 2 cut(s) 62, 100
BpuEI CTTGAG 2 cut(s) 161, 908
BsaHI GRCGYC 1 cut(s) 480
BsaJI CCNNGG 3 cut(s) 197, 632, 714
Bsc4I CCNNNNNNNGG 1 cut(s) 637
Bse1I ACTGG 3 cut(s) 26, 117, 275
Bse3DI GCAATG 2 cut(s) 156, 631
BseBI CCWGG 4 cut(s) 80, 198, 716, 770
BseDI CCNNGG 3 cut(s) 197, 632, 714
BseGI GGATG 5 cut(s) 208, 406, 642, 671, 816
BseLI CCNNNNNNNGG 1 cut(s) 637
BseMI GCAATG 2 cut(s) 156, 631
BseNI ACTGG 3 cut(s) 26, 117, 275
BseRI GAGGAG 1 cut(s) 142
BseXI GCAGC 5 cut(s) 28, 427, 564, 632, 760
BsgI GTGCAG 2 cut(s) 35, 292
BshNI GGYRCC 1 cut(s) 479
BsiHKAI GWGCWC 1 cut(s) 116
BsiSI CCGG 1 cut(s) 107
BslI CCNNNNNNNGG 1 cut(s) 637
BsmAI GTCTC 2 cut(s) 108, 799
BsmBI CGTCTC 1 cut(s) 108
Bsp1286I GDGCHC 1 cut(s) 116
Bsp1407I TGTACA 1 cut(s) 424
Bsp143I GATC 4 cut(s) 265, 511, 859, 892
BspACI CCGC 1 cut(s) 35
BspLI GGNNCC 5 cut(s) 45, 69, 151, 481, 894
BspPI GGATC 4 cut(s) 519, 867, 887, 900
BspQI GCTCTTC 1 cut(s) 900
BspT107I GGYRCC 1 cut(s) 479
BsrDI GCAATG 2 cut(s) 156, 631
BsrGI TGTACA 1 cut(s) 424
BsrI ACTGG 3 cut(s) 26, 117, 275
BssECI CCNNGG 3 cut(s) 197, 632, 714
BssMI GATC 4 cut(s) 265, 511, 859, 892
BssNI GRCGYC 1 cut(s) 480
Bst2UI CCWGG 4 cut(s) 80, 198, 716, 770
Bst4CI ACNGT 2 cut(s) 608, 656
Bst6I CTCTTC 1 cut(s) 900
BstACI GRCGYC 1 cut(s) 480
BstAPI GCANNNNNTGC 3 cut(s) 247, 315, 710
BstAUI TGTACA 1 cut(s) 424
BstC8I GCNNGC 3 cut(s) 112, 643, 706
BstDSI CCRYGG 1 cut(s) 632
BstF5I GGATG 5 cut(s) 208, 406, 642, 671, 816
BstH2I RGCGCY 2 cut(s) 277, 483
BstHHI GCGC 2 cut(s) 276, 482
BstKTI GATC 4 cut(s) 268, 514, 862, 895
BstMAI GTCTC 2 cut(s) 108, 799
BstMBI GATC 4 cut(s) 265, 511, 859, 892
BstMWI GCNNNNNNNGC 5 cut(s) 183, 247, 315, 710, 782
BstNI CCWGG 4 cut(s) 80, 198, 716, 770
BstNSI RCATGY 1 cut(s) 708
BstSCI CCNGG 4 cut(s) 78, 196, 714, 768
BstV1I GCAGC 5 cut(s) 28, 427, 564, 632, 760
BstV2I GAAGAC 1 cut(s) 141
BstX2I RGATCY 2 cut(s) 859, 892
BstYI RGATCY 2 cut(s) 859, 892
BtgI CCRYGG 1 cut(s) 632
BtgZI GCGATG 1 cut(s) 201
BtsCI GGATG 5 cut(s) 208, 406, 642, 671, 816
BtsI GCAGTG 1 cut(s) 304
BtsIMutI CAGTG 5 cut(s) 124, 268, 304, 505, 604
Cac8I GCNNGC 3 cut(s) 112, 643, 706
CfoI GCGC 2 cut(s) 276, 482
Cfr13I GGNCC 1 cut(s) 67
CseI GACGC 2 cut(s) 681, 899
Csp6I GTAC 2 cut(s) 425, 847
CspCI CAANNNNNGTGG 2 cut(s) 870, 905
CviAII CATG 4 cut(s) 219, 705, 866, 902
CviQI GTAC 2 cut(s) 425, 847
DinI GGCGCC 1 cut(s) 481
DpnI GATC 4 cut(s) 267, 513, 861, 894
DpnII GATC 4 cut(s) 265, 511, 859, 892
DriI GACNNNNNGTC 2 cut(s) 94, 97
Eam1104I CTCTTC 1 cut(s) 900
Eam1105I GACNNNNNGTC 2 cut(s) 94, 97
EarI CTCTTC 1 cut(s) 900
Ecl136II GAGCTC 1 cut(s) 114
Eco24I GRGCYC 1 cut(s) 116
Eco47I GGWCC 1 cut(s) 67
Eco53kI GAGCTC 1 cut(s) 114
Eco57I CTGAAG 1 cut(s) 469
EcoICRI GAGCTC 1 cut(s) 114
EcoRI GAATTC 1 cut(s) 490
EcoRII CCWGG 4 cut(s) 78, 196, 714, 768
EcoT38I GRGCYC 1 cut(s) 116
EgeI GGCGCC 1 cut(s) 481
EheI GGCGCC 1 cut(s) 481
Esp3I CGTCTC 1 cut(s) 108
FaeI CATG 4 cut(s) 222, 708, 869, 905
FatI CATG 4 cut(s) 218, 704, 865, 901
FauNDI CATATG 1 cut(s) 349
FbaI TGATCA 1 cut(s) 265
Fnu4HI GCNGC 5 cut(s) 17, 441, 578, 646, 774
FokI GGATG 5 cut(s) 215, 413, 649, 678, 803
FriOI GRGCYC 1 cut(s) 116
Fsp4HI GCNGC 5 cut(s) 17, 441, 578, 646, 774
FspBI CTAG 2 cut(s) 20, 54
GlaI GCGC 2 cut(s) 275, 481
GluI GCNGC 5 cut(s) 17, 441, 578, 646, 774
GsuI CTGGAG 2 cut(s) 62, 100
HaeII RGCGCY 2 cut(s) 277, 483
HapII CCGG 1 cut(s) 107
HgaI GACGC 2 cut(s) 681, 899
HhaI GCGC 2 cut(s) 276, 482
Hin1I GRCGYC 1 cut(s) 480
Hin1II CATG 4 cut(s) 222, 708, 869, 905
Hin6I GCGC 2 cut(s) 274, 480
HinP1I GCGC 2 cut(s) 274, 480
HinfI GANTC 3 cut(s) 95, 344, 795
HpaII CCGG 1 cut(s) 107
HphI GGTGA 1 cut(s) 207
Hpy188I TCNGA 4 cut(s) 383, 465, 792, 915
Hpy188III TCNNGA 5 cut(s) 263, 487, 820, 838, 896
Hpy99I CGWCG 4 cut(s) 89, 92, 95, 103
HpyAV CCTTC 5 cut(s) 281, 307, 493, 625, 835
HpyCH4III ACNGT 2 cut(s) 608, 656
HpyCH4V TGCA 8 cut(s) 16, 228, 250, 309, 318, 443, 458, 552
HpyF10VI GCNNNNNNNGC 5 cut(s) 183, 247, 315, 710, 782
Hsp92I GRCGYC 1 cut(s) 480
Hsp92II CATG 4 cut(s) 222, 708, 869, 905
HspAI GCGC 2 cut(s) 274, 480
KasI GGCGCC 1 cut(s) 479
Ksp22I TGATCA 1 cut(s) 265
Kzo9I GATC 4 cut(s) 265, 511, 859, 892
LguI GCTCTTC 1 cut(s) 900
LmnI GCTCC 4 cut(s) 81, 119, 155, 260
Lsp1109I GCAGC 5 cut(s) 28, 427, 564, 632, 760
LweI GCATC 1 cut(s) 178
MaeI CTAG 2 cut(s) 20, 54
MaeIII GTNAC 2 cut(s) 59, 872
MalI GATC 4 cut(s) 267, 513, 861, 894
MboI GATC 4 cut(s) 265, 511, 859, 892
MboII GAAGA 4 cut(s) 146, 326, 854, 917
MfeI CAATTG 1 cut(s) 444
MflI RGATCY 2 cut(s) 859, 892
MhlI GDGCHC 1 cut(s) 116
MluCI AATT 6 cut(s) 326, 377, 384, 435, 444, 490
Mly113I GGCGCC 1 cut(s) 480
MlyI GAGTC 1 cut(s) 104
MmeI TCCRAC 1 cut(s) 870
MnlI CCTC 7 cut(s) 81, 163, 188, 346, 694, 822, 850
MroXI GAANNNNTTC 1 cut(s) 494
MseI TTAA 1 cut(s) 282
MslI CAYNNNNRTG 1 cut(s) 223
MspI CCGG 1 cut(s) 107
MspR9I CCNGG 4 cut(s) 80, 198, 716, 770
MunI CAATTG 1 cut(s) 444
MvaI CCWGG 4 cut(s) 80, 198, 716, 770
MwoI GCNNNNNNNGC 5 cut(s) 183, 247, 315, 710, 782
NarI GGCGCC 1 cut(s) 480
NdeI CATATG 1 cut(s) 349
NdeII GATC 4 cut(s) 265, 511, 859, 892
NlaIII CATG 4 cut(s) 222, 708, 869, 905
NlaIV GGNNCC 5 cut(s) 45, 69, 151, 481, 894
NmuCI GTSAC 1 cut(s) 59
NspI RCATGY 1 cut(s) 708
PaeI GCATGC 1 cut(s) 708
PciSI GCTCTTC 1 cut(s) 900
PcsI WCGNNNNNNNCGW 2 cut(s) 90, 107
PdmI GAANNNNTTC 1 cut(s) 494
PfeI GAWTC 2 cut(s) 344, 795
PfoI TCCNGGA 1 cut(s) 78
PkrI GCNGC 5 cut(s) 18, 442, 579, 647, 775
PleI GAGTC 1 cut(s) 103
PluTI GGCGCC 1 cut(s) 483
PpsI GAGTC 1 cut(s) 103
Psp124BI GAGCTC 1 cut(s) 116
Psp6I CCWGG 4 cut(s) 78, 196, 714, 768
PspGI CCWGG 4 cut(s) 78, 196, 714, 768
PspN4I GGNNCC 5 cut(s) 45, 69, 151, 481, 894
PspPI GGNCC 1 cut(s) 67
PsuI RGATCY 2 cut(s) 859, 892
RsaI GTAC 2 cut(s) 426, 848
RsaNI GTAC 2 cut(s) 425, 847
RseI CAYNNNNRTG 1 cut(s) 223
SacI GAGCTC 1 cut(s) 116
SapI GCTCTTC 1 cut(s) 900
SaqAI TTAA 1 cut(s) 282
SatI GCNGC 5 cut(s) 17, 441, 578, 646, 774
Sau3AI GATC 4 cut(s) 265, 511, 859, 892
Sau96I GGNCC 1 cut(s) 67
SchI GAGTC 1 cut(s) 104
ScrFI CCNGG 4 cut(s) 80, 198, 716, 770
SduI GDGCHC 1 cut(s) 116
SetI ASST 5 cut(s) 21, 116, 141, 257, 760
SfaNI GCATC 1 cut(s) 178
SfoI GGCGCC 1 cut(s) 481
SinI GGWCC 1 cut(s) 67
SmiMI CAYNNNNRTG 1 cut(s) 223
SmlI CTYRAG 2 cut(s) 140, 923
SmoI CTYRAG 2 cut(s) 140, 923
SphI GCATGC 1 cut(s) 708
Sse9I AATT 6 cut(s) 326, 377, 384, 435, 444, 490
SsiI CCGC 1 cut(s) 35
SspDI GGCGCC 1 cut(s) 479
SspI AATATT 1 cut(s) 675
SspMI CTAG 2 cut(s) 20, 54
SstI GAGCTC 1 cut(s) 116
StyD4I CCNGG 4 cut(s) 78, 196, 714, 768
TaaI ACNGT 2 cut(s) 608, 656
TaqI TCGA 2 cut(s) 180, 337
TasI AATT 6 cut(s) 326, 377, 384, 435, 444, 490
TatI WGTACW 2 cut(s) 424, 846
TfiI GAWTC 2 cut(s) 344, 795
Tru1I TTAA 1 cut(s) 282
Tru9I TTAA 1 cut(s) 282
TscAI CASTG 5 cut(s) 124, 275, 311, 505, 611
TseFI GTSAC 1 cut(s) 59
TseI GCWGC 5 cut(s) 16, 440, 577, 645, 773
Tsp45I GTSAC 1 cut(s) 59
TspDTI ATGAA 6 cut(s) 17, 147, 320, 483, 854, 918
TspGWI ACGGA 1 cut(s) 649
TspRI CASTG 5 cut(s) 124, 275, 311, 505, 611
VpaK11BI GGWCC 1 cut(s) 67
XapI RAATTY 3 cut(s) 377, 384, 490
XceI RCATGY 1 cut(s) 708
XmnI GAANNNNTTC 1 cut(s) 494
XspI CTAG 2 cut(s) 20, 54
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.