RchiOBHm_Chr1g0377681

Cleavage and polyadenylation specificity factor

Basic Information

Type: gene
Biological Identity
rosa_chinensis
1
Physical Location & Seq
Forward (+)
64471441 .. 64476223
4783 bp
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UTR
Exon/CDS
Intron
PRQ60112

Sequence Viewer

Length: 1242 bp
ATGGCCAGTTTGGAAGCGGGTTTTTCTCACGATATATTTGTCGAATGGGCAACTGATGCTAAGAATCTTGTGCTTTTTACAGAACGAGCTCAGTTTGGCACGTTAGCTCGTATGCTTCAGGCAGACCCGCCTCCAAAAGCTGTCAAGGTTACCATGTCCAAGAGGATCCCTTTGGTTGGAGAAGAGCTAATTGCTTATGAAGAAGAGCAGAACAGAATTAAAAAGGAAGAAGCTCTAAAGGCTAGTCTGATTAAAGAGGAGGAGTTAAAAGCTTCTCATGGGGCTGATGTCAGCATGAGTGATCCACTGGTTATTGATACTAGCAATGCAAAGTCTTTGCCAGATGTGGTTCCACGTGGCGGTGGATGCAGAGACATTTTAATCGATGGATTTACTCCTCCTTCTACTAGTGTTGCCCCTATGTTTCCCTTCTATGAAAATAATTCTGAGTGGGATGACTTTGGTGAAGTTATAAATCCGGATGATTATGTTATCAAGGATGAAGACATGAACCAAGGAGCAATGCTTGTTGGAGGTGATATGGATGGAAAAATTGACGAAGCCTCTGCTAGTTTAATACTCGACTCAAGGCCTTCAAAAGTTGTGTCAAGTGAATTGACTGTACCAGTGAAGTGTTCACTGATATATATGGACTTTGAGGGCCGTTCTGATGCGAGATCTGTTAAATCGATTCTTTCGCATATGGCTCCTCTAAAGCTTGTTTTGGTTCATGGAACAGCTGAGGCCACTGAACATTTGAAGCAACACTGCTTGAAACATGTTTGCCCTCATGTATATGCTCCTCAACTTGAAGAAACAATTGATGTCACATCTGATTTATGTGCTTATAAGGTACAACTGTCCGAGAAGCTCATGAGTAACATAATCTTTAAGAAGCTTGGAGAGAATGAAATAGCTTGGTTCGATTCTGATGTAGGGAAGACAGAAGACGAAATGCTGACTTTACTACCCTGCTCAACCCCAGCTCCACCACACAAACCAATCCTAGTTGGTGACTTAAAAATGGCCGATTTCAAGCAATATCTTGCTGATAACGGTGTCCAGGTTGAATTTGCCAGTGGGGCTTTGCGATGTGGTGAATATGTGACAATACGCAAGGTTGGGGATGCAAGCCATAAGGGTGGCGGTGCTGGTTCGCAGCAAATTGTGATTGAAGGTCCAGCATGTGAGGATTATTACAAGATACGAGAATATCTCTATTCACACTTTTATTTACTTTAA

Protein Analysis

413

Amino Acids

45.51

Weight (kDa)

4.86

Isoelectric Point (pI)

39.95

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
Beta-Casp PF10996 3 - 39 9e-07 Beta-Casp domain
RMMBL PF07521 208 - 258 1.3e-10 Zn-dependent metallo-hydrolase RNA specificity domain
CPSF100_C PF13299 317 - 410 1.4e-19 Cleavage and polyadenylation factor 2 C-terminal
Hydrophobicity Profile (Kyte-Doolittle)
AI Structure Prediction Report
Calculating structure properties...

Genomic Context

Gene Family Tree

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Publication-ready

Restriction Enzyme Sites

1 / 10
Enzyme Recognition Site Cut Count Positions (bp)
AanI TTATAA 2 cut(s) 473, 849
AccIII TCCGGA 1 cut(s) 478
AciI CCGC 4 cut(s) 17, 128, 360, 1146
AclWI GGATC 3 cut(s) 160, 173, 296
AcoI YGGCCR 2 cut(s) 3, 1026
AcsI RAATTY 1 cut(s) 1070
AcuI CTGAAG 1 cut(s) 101
AcvI CACGTG 1 cut(s) 356
AfaI GTAC 2 cut(s) 624, 855
AfiI CCNNNNNNNGG 2 cut(s) 176, 359
AflIII ACRYGT 1 cut(s) 778
AgsI TTSAA 7 cut(s) 597, 760, 775, 812, 1036, 1070, 1175
AhlI ACTAGT 1 cut(s) 407
AjnI CCWGG 1 cut(s) 1062
Alw21I GWGCWC 1 cut(s) 91
Alw26I GTCTC 1 cut(s) 366
AlwI GGATC 3 cut(s) 160, 173, 296
Aor13HI TCCGGA 1 cut(s) 478
AoxI GGCC 5 cut(s) 3, 590, 661, 744, 1026
ApeKI GCWGC 1 cut(s) 1159
ApoI RAATTY 1 cut(s) 1070
ArsI GACNNNNNNTTYG 2 cut(s) 590, 622
AspS9I GGNCC 2 cut(s) 661, 1178
AsuHPI GGTGA 4 cut(s) 476, 548, 1025, 1109
AvaII GGWCC 1 cut(s) 1178
BaeI ACNNNNGTAYC 2 cut(s) 845, 878
BalI TGGCCA 1 cut(s) 5
BamHI GGATCC 1 cut(s) 165
BanII GRGCYC 1 cut(s) 91
BbrPI CACGTG 1 cut(s) 356
BbsI GAAGAC 3 cut(s) 510, 947, 954
Bbv12I GWGCWC 1 cut(s) 91
BbvCI CCTCAGC 1 cut(s) 741
BbvI GCAGC 1 cut(s) 1171
BccI CCATC 2 cut(s) 380, 539
BceAI ACGGC 1 cut(s) 648
BcgI CGANNNNNNTGC 2 cut(s) 548, 582
BciT130I CCWGG 1 cut(s) 1064
BcoDI GTCTC 1 cut(s) 366
BcuI ACTAGT 1 cut(s) 407
BfaI CTAG 5 cut(s) 243, 321, 408, 570, 1007
BglI GCCNNNNNGGC 1 cut(s) 1082
BglII AGATCT 1 cut(s) 677
BisI GCNGC 1 cut(s) 1160
BlsI GCNGC 1 cut(s) 1161
Bme1390I CCNGG 1 cut(s) 1064
Bme18I GGWCC 1 cut(s) 1178
BmgT120I GGNCC 2 cut(s) 661, 1178
BmiI GGNNCC 3 cut(s) 167, 351, 708
BmrFI CCNGG 1 cut(s) 1064
BmsI GCATC 4 cut(s) 46, 356, 661, 1117
BpiI GAAGAC 3 cut(s) 510, 947, 954
BplI GAGNNNNNCTC 2 cut(s) 1200, 1232
Bpu10I CCTNAGC 1 cut(s) 741
BpuEI CTTGAG 1 cut(s) 571
Bsa29I ATCGAT 2 cut(s) 384, 689
BsaAI YACGTR 1 cut(s) 356
BsaJI CCNNGG 1 cut(s) 514
BsaWI WCCGGW 1 cut(s) 478
BsaXI ACNNNNNCTCC 2 cut(s) 970, 1000
Bsc4I CCNNNNNNNGG 2 cut(s) 176, 359
Bse1I ACTGG 4 cut(s) 6, 312, 626, 1077
Bse3DI GCAATG 2 cut(s) 331, 528
BseAI TCCGGA 1 cut(s) 478
BseBI CCWGG 1 cut(s) 1064
BseCI ATCGAT 2 cut(s) 384, 689
BseDI CCNNGG 1 cut(s) 514
BseGI GGATG 6 cut(s) 371, 460, 487, 505, 550, 1132
BseLI CCNNNNNNNGG 2 cut(s) 176, 359
BseMI GCAATG 2 cut(s) 331, 528
BseMII CTCAG 3 cut(s) 104, 438, 732
BseNI ACTGG 4 cut(s) 6, 312, 626, 1077
BseRI GAGGAG 5 cut(s) 272, 275, 387, 699, 792
BseXI GCAGC 1 cut(s) 1171
BseYI CCCAGC 1 cut(s) 982
BshFI GGCC 5 cut(s) 5, 592, 663, 746, 1028
BshVI ATCGAT 2 cut(s) 384, 689
BsiHKAI GWGCWC 1 cut(s) 91
BsiSI CCGG 1 cut(s) 479
BslI CCNNNNNNNGG 2 cut(s) 176, 359
BsmAI GTCTC 1 cut(s) 366
BsnI GGCC 5 cut(s) 5, 592, 663, 746, 1028
Bsp1286I GDGCHC 1 cut(s) 91
Bsp13I TCCGGA 1 cut(s) 478
Bsp143I GATC 3 cut(s) 165, 301, 677
BspACI CCGC 4 cut(s) 17, 128, 360, 1146
BspANI GGCC 5 cut(s) 5, 592, 663, 746, 1028
BspCNI CTCAG 3 cut(s) 103, 439, 733
BspDI ATCGAT 2 cut(s) 384, 689
BspEI TCCGGA 1 cut(s) 478
BspHI TCATGA 1 cut(s) 873
BspLI GGNNCC 3 cut(s) 167, 351, 708
BspPI GGATC 3 cut(s) 160, 173, 296
BspQI GCTCTTC 2 cut(s) 177, 198
BsrDI GCAATG 2 cut(s) 331, 528
BsrI ACTGG 4 cut(s) 6, 312, 626, 1077
BssECI CCNNGG 1 cut(s) 514
BssMI GATC 3 cut(s) 165, 301, 677
BssT1I CCWWGG 1 cut(s) 514
Bst2UI CCWGG 1 cut(s) 1064
Bst4CI ACNGT 3 cut(s) 622, 861, 1058
Bst6I CTCTTC 2 cut(s) 177, 198
BstAPI GCANNNNNTGC 1 cut(s) 56
BstBAI YACGTR 1 cut(s) 356
BstC8I GCNNGC 1 cut(s) 1132
BstDEI CTNAG 4 cut(s) 60, 90, 447, 741
BstEII GGTNACC 1 cut(s) 148
BstF5I GGATG 6 cut(s) 371, 460, 487, 505, 550, 1132
BstKTI GATC 3 cut(s) 168, 304, 680
BstMAI GTCTC 1 cut(s) 366
BstMBI GATC 3 cut(s) 165, 301, 677
BstMWI GCNNNNNNNGC 4 cut(s) 56, 239, 366, 1082
BstNI CCWGG 1 cut(s) 1064
BstNSI RCATGY 2 cut(s) 782, 1188
BstPI GGTNACC 1 cut(s) 148
BstSCI CCNGG 1 cut(s) 1062
BstV1I GCAGC 1 cut(s) 1171
BstV2I GAAGAC 3 cut(s) 510, 947, 954
BstX2I RGATCY 2 cut(s) 165, 677
BstXI CCANNNNNNTGG 1 cut(s) 1142
BstYI RGATCY 2 cut(s) 165, 677
Bsu15I ATCGAT 2 cut(s) 384, 689
BsuRI GGCC 5 cut(s) 5, 592, 663, 746, 1028
BsuTUI ATCGAT 2 cut(s) 384, 689
BtgZI GCGATG 1 cut(s) 1105
BtsCI GGATG 6 cut(s) 371, 460, 487, 505, 550, 1132
BtsI GCAGTG 1 cut(s) 766
BtsIMutI CAGTG 6 cut(s) 305, 633, 638, 747, 766, 1084
Cac8I GCNNGC 1 cut(s) 1132
CciI TCATGA 1 cut(s) 873
Cfr13I GGNCC 2 cut(s) 661, 1178
ClaI ATCGAT 2 cut(s) 384, 689
Csp6I GTAC 2 cut(s) 623, 854
CviAII CATG 9 cut(s) 154, 278, 295, 508, 731, 779, 791, 874, 1185
CviQI GTAC 2 cut(s) 623, 854
DdeI CTNAG 4 cut(s) 60, 90, 447, 741
DpnI GATC 3 cut(s) 167, 303, 679
DpnII GATC 3 cut(s) 165, 301, 677
EaeI YGGCCR 2 cut(s) 3, 1026
Eam1104I CTCTTC 2 cut(s) 177, 198
EarI CTCTTC 2 cut(s) 177, 198
Ecl136II GAGCTC 1 cut(s) 89
Eco130I CCWWGG 1 cut(s) 514
Eco147I AGGCCT 1 cut(s) 592
Eco24I GRGCYC 1 cut(s) 91
Eco47I GGWCC 1 cut(s) 1178
Eco53kI GAGCTC 1 cut(s) 89
Eco57I CTGAAG 1 cut(s) 101
Eco72I CACGTG 1 cut(s) 356
Eco91I GGTNACC 1 cut(s) 148
EcoICRI GAGCTC 1 cut(s) 89
EcoO65I GGTNACC 1 cut(s) 148
EcoRII CCWGG 1 cut(s) 1062
EcoT14I CCWWGG 1 cut(s) 514
EcoT38I GRGCYC 1 cut(s) 91
ErhI CCWWGG 1 cut(s) 514
FaeI CATG 9 cut(s) 157, 281, 298, 511, 734, 782, 794, 877, 1188
FatI CATG 9 cut(s) 153, 277, 294, 507, 730, 778, 790, 873, 1184
FauI CCCGC 2 cut(s) 10, 135
FauNDI CATATG 1 cut(s) 702
Fnu4HI GCNGC 1 cut(s) 1160
FokI GGATG 6 cut(s) 378, 467, 494, 512, 557, 1139
FriOI GRGCYC 1 cut(s) 91
Fsp4HI GCNGC 1 cut(s) 1160
FspBI CTAG 5 cut(s) 243, 321, 408, 570, 1007
GluI GCNGC 1 cut(s) 1160
GsaI CCCAGC 1 cut(s) 986
HaeIII GGCC 5 cut(s) 5, 592, 663, 746, 1028
HapII CCGG 1 cut(s) 479
Hin1II CATG 9 cut(s) 157, 281, 298, 511, 734, 782, 794, 877, 1188
HindIII AAGCTT 3 cut(s) 270, 716, 896
HinfI GANTC 4 cut(s) 64, 584, 691, 926
HpaII CCGG 1 cut(s) 479
HphI GGTGA 4 cut(s) 476, 548, 1025, 1109
Hpy166II GTNNAC 1 cut(s) 638
Hpy188I TCNGA 6 cut(s) 249, 448, 670, 835, 865, 931
Hpy188III TCNNGA 3 cut(s) 29, 479, 874
Hpy8I GTNNAC 1 cut(s) 638
HpyAV CCTTC 4 cut(s) 411, 439, 603, 1169
HpyCH4III ACNGT 3 cut(s) 622, 861, 1058
HpyCH4IV ACGT 2 cut(s) 101, 355
HpyCH4V TGCA 3 cut(s) 329, 369, 1130
HpyF10VI GCNNNNNNNGC 4 cut(s) 56, 239, 366, 1082
HpyF3I CTNAG 4 cut(s) 60, 90, 447, 741
HpySE526I ACGT 2 cut(s) 101, 355
Hsp92II CATG 9 cut(s) 157, 281, 298, 511, 734, 782, 794, 877, 1188
Kpn2I TCCGGA 1 cut(s) 478
Kzo9I GATC 3 cut(s) 165, 301, 677
LguI GCTCTTC 2 cut(s) 177, 198
LmnI GCTCC 4 cut(s) 518, 712, 805, 991
Lsp1109I GCAGC 1 cut(s) 1171
LweI GCATC 4 cut(s) 46, 356, 661, 1117
MaeI CTAG 5 cut(s) 243, 321, 408, 570, 1007
MaeII ACGT 2 cut(s) 101, 355
MaeIII GTNAC 5 cut(s) 148, 826, 878, 1013, 1105
MalI GATC 3 cut(s) 167, 303, 679
MboI GATC 3 cut(s) 165, 301, 677
MboII GAAGA 8 cut(s) 194, 212, 215, 239, 515, 824, 952, 959
MfeI CAATTG 1 cut(s) 819
MflI RGATCY 2 cut(s) 165, 677
MhlI GDGCHC 1 cut(s) 91
MlsI TGGCCA 1 cut(s) 5
MluCI AATT 8 cut(s) 189, 216, 442, 552, 614, 819, 1070, 1164
MluNI TGGCCA 1 cut(s) 5
MlyI GAGTC 1 cut(s) 578
MmeI TCCRAC 2 cut(s) 157, 511
Mox20I TGGCCA 1 cut(s) 5
MroI TCCGGA 1 cut(s) 478
MscI TGGCCA 1 cut(s) 5
MseI TTAA 9 cut(s) 219, 252, 266, 380, 575, 684, 891, 1019, 1240
MslI CAYNNNNRTG 2 cut(s) 795, 1140
Msp20I TGGCCA 1 cut(s) 5
MspA1I CMGCKG 1 cut(s) 740
MspI CCGG 1 cut(s) 479
MspR9I CCNGG 1 cut(s) 1064
MunI CAATTG 1 cut(s) 819
MvaI CCWGG 1 cut(s) 1064
MwoI GCNNNNNNNGC 4 cut(s) 56, 239, 366, 1082
NdeI CATATG 1 cut(s) 702
NdeII GATC 3 cut(s) 165, 301, 677
NlaIII CATG 9 cut(s) 157, 281, 298, 511, 734, 782, 794, 877, 1188
NlaIV GGNNCC 3 cut(s) 167, 351, 708
NmuCI GTSAC 3 cut(s) 826, 1013, 1105
NspI RCATGY 2 cut(s) 782, 1188
PagI TCATGA 1 cut(s) 873
PceI AGGCCT 1 cut(s) 592
PciI ACATGT 1 cut(s) 778
PciSI GCTCTTC 2 cut(s) 177, 198
PfeI GAWTC 3 cut(s) 64, 691, 926
PkrI GCNGC 1 cut(s) 1161
PleI GAGTC 1 cut(s) 578
PmaCI CACGTG 1 cut(s) 356
PmlI CACGTG 1 cut(s) 356
PpsI GAGTC 1 cut(s) 578
Ppu21I YACGTR 1 cut(s) 356
PscI ACATGT 1 cut(s) 778
PsiI TTATAA 2 cut(s) 473, 849
Psp124BI GAGCTC 1 cut(s) 91
Psp6I CCWGG 1 cut(s) 1062
PspCI CACGTG 1 cut(s) 356
PspEI GGTNACC 1 cut(s) 148
PspFI CCCAGC 1 cut(s) 982
PspGI CCWGG 1 cut(s) 1062
PspN4I GGNNCC 3 cut(s) 167, 351, 708
PspPI GGNCC 2 cut(s) 661, 1178
PsuI RGATCY 2 cut(s) 165, 677
PvuII CAGCTG 1 cut(s) 740
RsaI GTAC 2 cut(s) 624, 855
RsaNI GTAC 2 cut(s) 623, 854
RseI CAYNNNNRTG 2 cut(s) 795, 1140
SacI GAGCTC 1 cut(s) 91
SapI GCTCTTC 2 cut(s) 177, 198
SaqAI TTAA 9 cut(s) 219, 252, 266, 380, 575, 684, 891, 1019, 1240
SatI GCNGC 1 cut(s) 1160
Sau3AI GATC 3 cut(s) 165, 301, 677
Sau96I GGNCC 2 cut(s) 661, 1178
SchI GAGTC 1 cut(s) 578
ScrFI CCNGG 1 cut(s) 1064
SduI GDGCHC 1 cut(s) 91
SfaNI GCATC 4 cut(s) 46, 356, 661, 1117
SinI GGWCC 1 cut(s) 1178
SmiMI CAYNNNNRTG 2 cut(s) 795, 1140
SmlI CTYRAG 1 cut(s) 586
SmoI CTYRAG 1 cut(s) 586
SpeI ACTAGT 1 cut(s) 407
Sse9I AATT 8 cut(s) 189, 216, 442, 552, 614, 819, 1070, 1164
SseBI AGGCCT 1 cut(s) 592
SsiI CCGC 4 cut(s) 17, 128, 360, 1146
SspMI CTAG 5 cut(s) 243, 321, 408, 570, 1007
SstI GAGCTC 1 cut(s) 91
StuI AGGCCT 1 cut(s) 592
StyD4I CCNGG 1 cut(s) 1062
StyI CCWWGG 1 cut(s) 514
TaaI ACNGT 3 cut(s) 622, 861, 1058
TaiI ACGT 2 cut(s) 104, 358
TaqI TCGA 5 cut(s) 42, 384, 582, 689, 924
TasI AATT 8 cut(s) 189, 216, 442, 552, 614, 819, 1070, 1164
TfiI GAWTC 3 cut(s) 64, 691, 926
Tru1I TTAA 9 cut(s) 219, 252, 266, 380, 575, 684, 891, 1019, 1240
Tru9I TTAA 9 cut(s) 219, 252, 266, 380, 575, 684, 891, 1019, 1240
TscAI CASTG 6 cut(s) 312, 633, 645, 754, 773, 1084
TseFI GTSAC 3 cut(s) 826, 1013, 1105
TseI GCWGC 1 cut(s) 1159
Tsp45I GTSAC 3 cut(s) 826, 1013, 1105
TspDTI ATGAA 6 cut(s) 213, 450, 516, 524, 719, 924
TspRI CASTG 6 cut(s) 312, 633, 645, 754, 773, 1084
VpaK11BI GGWCC 1 cut(s) 1178
XapI RAATTY 1 cut(s) 1070
XceI RCATGY 2 cut(s) 782, 1188
XspI CTAG 5 cut(s) 243, 321, 408, 570, 1007
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.