Rw5G002890

Polyadenylate-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_wichuraiana
Chr5
OG0005574
Physical Location & Seq
Reverse (-)
2747616 .. 2751340
3725 bp
Loading structure...
UTR
Exon/CDS
Intron
Rw5G002890.1

Sequence Viewer

Length: 1221 bp
ATGATGCAACCCGGCTCCGGTCTGGCTCCGTCGCAAATGGGCCAGCAGCCGGCCCAGCAGTACGGCCAGCAGCCGCCCGCCGCCCAGCCCTACATGATGATGCCGCCTCCGCCTCCCGCCGTCCAGGCCCAGCCGATGTGGGCCCCGCAGTCGCACGTGGCCCCGCCGCAGCCGCAGCCGGCGCAGCCCGCCAGCGCCGACGAGGTCCGCACGCTCTGGATCGGCGACTTGCAGTACTGGATGGAAGAGACCTATCTTTTCAGTATCTTCGCCAACACCGGCGAGGTTGTTAGTGTGAAAGTCATCCGGAATAAGCAAACTACTCAATCAGAGGGCTATGGGTTTATTGAGTTTGTTAATCGAGCTGCTGCAGAAAGAGTGCTTCAGACGTACAATGGTACCCCTATGCCAAATGGGGGCCAGCCTTTCAGATTGAACTGGGCATCTGCAGGGGAGAAGCGTTCTGATGATACGCCTGATTATACAATATTTGTGGGCGACTTGGCTGTGGATGTGACAGATTATATGCTACAAGAGATATTTAAGGCTCGCTATCCATCATGCAAGGGAGCCAAGGTTGTTATTGACAGACTTACTGGGCGCACAAAGGGATATGGGTTTGTTAAGTTTGGAGATGAGAGTGAACAGTTGCGTGCAATGACCGAGATGAATGGAGTTGTTTGCTCTTCACGGCCCATGCGAATTGGGCCAGCTGCAAACAAAAATGCTGGGGGTAATCAGCAATATTCGAAAGCTTCATATCAGAGTTCTCCAGGTGCAAAGAATGAGACCGATCCCAATAATACAACTATATTTGTTGGAAATCTGGATGCTAACGTTACCGATGATCATTTGAGAACAGTTTTTAGCCAGTATGGTGAGCTAGTTCATGTTAAGATACCAGCAGGCAAGCGATGTGGGTTTGTTCAGTTCGCAGACAGGAGCCGTGCTGAAGAGGCTTTGCAAGGATTAAACAATTCTCAGATTGGTGGACAGAATATCCGACTTTCTTGGGGCCGCAGTCCTTCAAACAAGCAGCAGGCTCAGGCAGATCCTAACCAATGGAATGCTGGCTATTATGGATATGCACCAACCCCCGAGGGATATGGATATGCCCAAGTATCCCAAGACCCTAACATGTACTATGGAGGGTATCCTGCTGGATATGGCAATTACCAGCAGTCACAGCAGCAACAGCAGCAGCAAGTGGGTTATAGTTGA

Protein Analysis

406

Amino Acids

44.72

Weight (kDa)

6.01

Isoelectric Point (pI)

56.88

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 72 - 136 8.9e-13 RNA recognition motif
RRM_1 PF00076 163 - 232 4.3e-13 RNA recognition motif
RRM_5 PF13893 249 - 340 1.1e-07 RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)
RRM_occluded PF16842 270 - 336 3e-06 Occluded RNA-recognition motif
RRM_1 PF00076 271 - 335 1.4e-16 RNA recognition motif
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)
Acc65I GGTACC 1 cut(s) 398
AccB1I GGYRCC 1 cut(s) 398
AccIII TCCGGA 1 cut(s) 306
AclI AACGTT 1 cut(s) 837
AclWI GGATC 3 cut(s) 227, 788, 1046
AcoI YGGCCR 1 cut(s) 64
AcuI CTGAAG 2 cut(s) 368, 972
AcvI CACGTG 1 cut(s) 157
AfaI GTAC 5 cut(s) 62, 236, 392, 400, 1142
AfiI CCNNNNNNNGG 3 cut(s) 17, 49, 416
AflIII ACRYGT 1 cut(s) 1137
AgsI TTSAA 2 cut(s) 436, 1029
AjnI CCWGG 2 cut(s) 123, 772
AluBI AGCT 4 cut(s) 365, 713, 755, 883
AluI AGCT 4 cut(s) 365, 713, 755, 883
Alw26I GTCTC 2 cut(s) 242, 782
AlwI GGATC 3 cut(s) 227, 788, 1046
Ama87I CYCGRG 1 cut(s) 1097
Aor13HI TCCGGA 1 cut(s) 306
ApaI GGGCCC 1 cut(s) 145
Asp718I GGTACC 1 cut(s) 398
AspLEI GCGC 3 cut(s) 184, 197, 603
AsuC2I CCSGG 1 cut(s) 12
AsuHPI GGTGA 1 cut(s) 890
AsuII TTCGAA 1 cut(s) 749
AvaI CYCGRG 1 cut(s) 1097
AvaII GGWCC 1 cut(s) 205
BaeGI GKGCMC 1 cut(s) 145
BaeI ACNNNNGTAYC 2 cut(s) 382, 415
BanI GGYRCC 1 cut(s) 398
BanII GRGCYC 1 cut(s) 145
BbrPI CACGTG 1 cut(s) 157
BccI CCATC 2 cut(s) 235, 565
BceAI ACGGC 4 cut(s) 79, 104, 707, 930
BciT130I CCWGG 2 cut(s) 125, 774
BciVI GTATCC 2 cut(s) 1132, 1164
BclI TGATCA 1 cut(s) 847
BcnI CCSGG 1 cut(s) 12
BcoDI GTCTC 2 cut(s) 242, 782
BfaI CTAG 1 cut(s) 884
BfmI CTRYAG 2 cut(s) 369, 447
BfoI RGCGCY 1 cut(s) 198
BfuI GTATCC 2 cut(s) 1132, 1164
BglI GCCNNNNNGGC 1 cut(s) 125
BmcAI AGTACT 1 cut(s) 236
Bme1390I CCNGG 3 cut(s) 12, 125, 774
Bme18I GGWCC 1 cut(s) 205
BmeT110I CYCGRG 1 cut(s) 1097
BmrFI CCNGG 3 cut(s) 12, 125, 774
BmrI ACTGGG 2 cut(s) 448, 606
BmsI GCATC 3 cut(s) 90, 452, 820
BmuI ACTGGG 2 cut(s) 448, 606
BpmI CTGGAG 1 cut(s) 756
Bpu10I CCTNAGC 1 cut(s) 1044
Bpu14I TTCGAA 1 cut(s) 749
BpuMI CCSGG 1 cut(s) 12
BsaAI YACGTR 1 cut(s) 157
BsaI GGTCTC 2 cut(s) 242, 782
BsaJI CCNNGG 2 cut(s) 573, 1098
BsaWI WCCGGW 2 cut(s) 17, 306
BsaXI ACNNNNNCTCC 2 cut(s) 561, 591
Bsc4I CCNNNNNNNGG 3 cut(s) 17, 49, 416
Bse118I RCCGGY 3 cut(s) 49, 178, 278
Bse1I ACTGG 4 cut(s) 242, 443, 601, 871
Bse3DI GCAATG 1 cut(s) 663
BseAI TCCGGA 1 cut(s) 306
BseBI CCWGG 2 cut(s) 125, 774
BseDI CCNNGG 2 cut(s) 573, 1098
BseGI GGATG 4 cut(s) 246, 303, 517, 835
BseLI CCNNNNNNNGG 3 cut(s) 17, 49, 416
BseMI GCAATG 1 cut(s) 663
BseMII CTCAG 2 cut(s) 995, 1058
BseNI ACTGG 4 cut(s) 242, 443, 601, 871
BseSI GKGCMC 1 cut(s) 145
BseYI CCCAGC 4 cut(s) 54, 84, 129, 728
BshNI GGYRCC 1 cut(s) 398
BsiHKCI CYCGRG 1 cut(s) 1097
BsiSI CCGG 6 cut(s) 12, 18, 50, 179, 279, 307
BslI CCNNNNNNNGG 3 cut(s) 17, 49, 416
BsmAI GTCTC 2 cut(s) 242, 782
BsmI GAATGC 1 cut(s) 1072
Bso31I GGTCTC 2 cut(s) 242, 782
BsoBI CYCGRG 1 cut(s) 1097
Bsp119I TTCGAA 1 cut(s) 749
Bsp120I GGGCCC 1 cut(s) 141
Bsp1286I GDGCHC 1 cut(s) 145
Bsp13I TCCGGA 1 cut(s) 306
Bsp143I GATC 4 cut(s) 219, 793, 847, 1051
BspCNI CTCAG 2 cut(s) 994, 1057
BspEI TCCGGA 1 cut(s) 306
BspMAI CTGCAG 2 cut(s) 373, 451
BspPI GGATC 3 cut(s) 227, 788, 1046
BspQI GCTCTTC 1 cut(s) 691
BspT104I TTCGAA 1 cut(s) 749
BspT107I GGYRCC 1 cut(s) 398
BspTNI GGTCTC 2 cut(s) 242, 782
BsrDI GCAATG 1 cut(s) 663
BsrFI RCCGGY 3 cut(s) 49, 178, 278
BsrI ACTGG 4 cut(s) 242, 443, 601, 871
BssAI RCCGGY 3 cut(s) 49, 178, 278
BssECI CCNNGG 2 cut(s) 573, 1098
BssMI GATC 4 cut(s) 219, 793, 847, 1051
BssT1I CCWWGG 1 cut(s) 573
Bst2UI CCWGG 2 cut(s) 125, 774
Bst4CI ACNGT 2 cut(s) 648, 862
Bst6I CTCTTC 3 cut(s) 240, 691, 948
BstBAI YACGTR 1 cut(s) 157
BstBI TTCGAA 1 cut(s) 749
BstDEI CTNAG 2 cut(s) 981, 1044
BstF5I GGATG 4 cut(s) 246, 303, 517, 835
BstH2I RGCGCY 1 cut(s) 198
BstHHI GCGC 3 cut(s) 184, 197, 603
BstKTI GATC 4 cut(s) 222, 796, 850, 1054
BstMAI GTCTC 2 cut(s) 242, 782
BstMBI GATC 4 cut(s) 219, 793, 847, 1051
BstNI CCWGG 2 cut(s) 125, 774
BstNSI RCATGY 1 cut(s) 1141
BstSCI CCNGG 3 cut(s) 10, 123, 772
BstSFI CTRYAG 2 cut(s) 369, 447
BstSLI GKGCMC 1 cut(s) 145
BstX2I RGATCY 1 cut(s) 1051
BstYI RGATCY 1 cut(s) 1051
BsuI GTATCC 2 cut(s) 1132, 1164
BtgZI GCGATG 1 cut(s) 928
BtsCI GGATG 4 cut(s) 246, 303, 517, 835
CfoI GCGC 3 cut(s) 184, 197, 603
Cfr10I RCCGGY 3 cut(s) 49, 178, 278
Csp6I GTAC 5 cut(s) 61, 235, 391, 399, 1141
CspCI CAANNNNNGTGG 4 cut(s) 474, 509, 898, 933
CviAII CATG 5 cut(s) 94, 561, 697, 890, 1138
CviQI GTAC 5 cut(s) 61, 235, 391, 399, 1141
DdeI CTNAG 2 cut(s) 981, 1044
DpnI GATC 4 cut(s) 221, 795, 849, 1053
DpnII GATC 4 cut(s) 219, 793, 847, 1051
EaeI YGGCCR 1 cut(s) 64
Eam1104I CTCTTC 3 cut(s) 240, 691, 948
EarI CTCTTC 3 cut(s) 240, 691, 948
EciI GGCGGA 1 cut(s) 99
Eco130I CCWWGG 1 cut(s) 573
Eco24I GRGCYC 1 cut(s) 145
Eco31I GGTCTC 2 cut(s) 242, 782
Eco47I GGWCC 1 cut(s) 205
Eco57I CTGAAG 2 cut(s) 368, 972
Eco72I CACGTG 1 cut(s) 157
Eco88I CYCGRG 1 cut(s) 1097
EcoO109I RGGNCCY 1 cut(s) 142
EcoRII CCWGG 2 cut(s) 123, 772
EcoT14I CCWWGG 1 cut(s) 573
EcoT38I GRGCYC 1 cut(s) 145
ErhI CCWWGG 1 cut(s) 573
FaeI CATG 5 cut(s) 97, 564, 700, 893, 1141
FatI CATG 5 cut(s) 93, 560, 696, 889, 1137
FauI CCCGC 5 cut(s) 85, 124, 153, 171, 196
FbaI TGATCA 1 cut(s) 847
FokI GGATG 4 cut(s) 253, 290, 524, 842
FriOI GRGCYC 1 cut(s) 145
FspBI CTAG 1 cut(s) 884
GlaI GCGC 3 cut(s) 183, 196, 602
GsaI CCCAGC 4 cut(s) 58, 88, 133, 732
GsuI CTGGAG 1 cut(s) 756
HaeII RGCGCY 1 cut(s) 198
HapII CCGG 6 cut(s) 12, 18, 50, 179, 279, 307
HhaI GCGC 3 cut(s) 184, 197, 603
Hin1II CATG 5 cut(s) 97, 564, 700, 893, 1141
Hin6I GCGC 3 cut(s) 182, 195, 601
HinP1I GCGC 3 cut(s) 182, 195, 601
HindIII AAGCTT 1 cut(s) 753
HpaII CCGG 6 cut(s) 12, 18, 50, 179, 279, 307
HphI GGTGA 1 cut(s) 890
Hpy166II GTNNAC 2 cut(s) 644, 992
Hpy188I TCNGA 7 cut(s) 331, 387, 431, 466, 765, 984, 1004
Hpy188III TCNNGA 3 cut(s) 217, 307, 827
Hpy8I GTNNAC 2 cut(s) 644, 992
Hpy99I CGWCG 2 cut(s) 34, 203
HpyAV CCTTC 1 cut(s) 1035
HpyCH4III ACNGT 2 cut(s) 648, 862
HpyCH4IV ACGT 3 cut(s) 156, 389, 837
HpyF3I CTNAG 2 cut(s) 981, 1044
HpySE526I ACGT 3 cut(s) 156, 389, 837
Hsp92II CATG 5 cut(s) 97, 564, 700, 893, 1141
HspAI GCGC 3 cut(s) 182, 195, 601
Kpn2I TCCGGA 1 cut(s) 306
KpnI GGTACC 1 cut(s) 402
KroI GCCGGC 2 cut(s) 49, 178
KroNI GCCGGC 2 cut(s) 51, 180
Ksp22I TGATCA 1 cut(s) 847
Kzo9I GATC 4 cut(s) 219, 793, 847, 1051
LguI GCTCTTC 1 cut(s) 691
LmnI GCTCC 4 cut(s) 20, 31, 569, 942
LweI GCATC 3 cut(s) 90, 452, 820
MaeI CTAG 1 cut(s) 884
MaeII ACGT 3 cut(s) 156, 389, 837
MaeIII GTNAC 3 cut(s) 514, 838, 1182
MalI GATC 4 cut(s) 221, 795, 849, 1053
MboI GATC 4 cut(s) 219, 793, 847, 1051
MboII GAAGA 4 cut(s) 257, 259, 678, 965
MflI RGATCY 1 cut(s) 1051
MhlI GDGCHC 1 cut(s) 145
MluCI AATT 3 cut(s) 702, 976, 1171
MmeI TCCRAC 2 cut(s) 799, 1027
MnlI CCTC 8 cut(s) 117, 123, 196, 277, 325, 949, 1093, 1142
MroI TCCGGA 1 cut(s) 306
MroNI GCCGGC 2 cut(s) 49, 178
MseI TTAA 5 cut(s) 357, 543, 624, 894, 971
MslI CAYNNNNRTG 1 cut(s) 98
MspA1I CMGCKG 1 cut(s) 713
MspI CCGG 6 cut(s) 12, 18, 50, 179, 279, 307
MspR9I CCNGG 3 cut(s) 12, 125, 774
Mva1269I GAATGC 1 cut(s) 1072
MvaI CCWGG 2 cut(s) 125, 774
NaeI GCCGGC 2 cut(s) 51, 180
NciI CCSGG 1 cut(s) 12
NdeII GATC 4 cut(s) 219, 793, 847, 1051
NgoMIV GCCGGC 2 cut(s) 49, 178
NlaIII CATG 5 cut(s) 97, 564, 700, 893, 1141
NmuCI GTSAC 2 cut(s) 514, 1182
NspI RCATGY 1 cut(s) 1141
NspV TTCGAA 1 cut(s) 749
PciI ACATGT 1 cut(s) 1137
PciSI GCTCTTC 1 cut(s) 691
PcsI WCGNNNNNNNCGW 1 cut(s) 697
PctI GAATGC 1 cut(s) 1072
PdiI GCCGGC 2 cut(s) 51, 180
PflFI GACNNNGTC 1 cut(s) 203
PmaCI CACGTG 1 cut(s) 157
PmlI CACGTG 1 cut(s) 157
Ppu21I YACGTR 1 cut(s) 157
PscI ACATGT 1 cut(s) 1137
Psp1406I AACGTT 1 cut(s) 837
Psp6I CCWGG 2 cut(s) 123, 772
PspCI CACGTG 1 cut(s) 157
PspFI CCCAGC 4 cut(s) 54, 84, 129, 728
PspGI CCWGG 2 cut(s) 123, 772
PspOMI GGGCCC 1 cut(s) 141
PstI CTGCAG 2 cut(s) 373, 451
PsuI RGATCY 1 cut(s) 1051
PsyI GACNNNGTC 1 cut(s) 203
PvuII CAGCTG 1 cut(s) 713
RsaI GTAC 5 cut(s) 62, 236, 392, 400, 1142
RsaNI GTAC 5 cut(s) 61, 235, 391, 399, 1141
RseI CAYNNNNRTG 1 cut(s) 98
SapI GCTCTTC 1 cut(s) 691
SaqAI TTAA 5 cut(s) 357, 543, 624, 894, 971
Sau3AI GATC 4 cut(s) 219, 793, 847, 1051
ScaI AGTACT 1 cut(s) 236
ScrFI CCNGG 3 cut(s) 12, 125, 774
SduI GDGCHC 1 cut(s) 145
SfaNI GCATC 3 cut(s) 90, 452, 820
SfcI CTRYAG 2 cut(s) 369, 447
SfuI TTCGAA 1 cut(s) 749
SgrAI CRCCGGYG 1 cut(s) 278
SinI GGWCC 1 cut(s) 205
SmiMI CAYNNNNRTG 1 cut(s) 98
Sse9I AATT 3 cut(s) 702, 976, 1171
SspI AATATT 2 cut(s) 489, 746
SspMI CTAG 1 cut(s) 884
StyD4I CCNGG 3 cut(s) 10, 123, 772
StyI CCWWGG 1 cut(s) 573
TaaI ACNGT 2 cut(s) 648, 862
TaiI ACGT 3 cut(s) 159, 392, 840
TaqI TCGA 2 cut(s) 361, 749
TaqII GACCGA 2 cut(s) 677, 806
TasI AATT 3 cut(s) 702, 976, 1171
TatI WGTACW 2 cut(s) 234, 1140
TauI GCSGC 6 cut(s) 76, 83, 106, 169, 175, 1020
Tru1I TTAA 5 cut(s) 357, 543, 624, 894, 971
Tru9I TTAA 5 cut(s) 357, 543, 624, 894, 971
TseFI GTSAC 2 cut(s) 514, 1182
Tsp45I GTSAC 2 cut(s) 514, 1182
TspDTI ATGAA 3 cut(s) 683, 747, 878
TspGWI ACGGA 1 cut(s) 18
Tth111I GACNNNGTC 1 cut(s) 203
VpaK11BI GGWCC 1 cut(s) 205
XceI RCATGY 1 cut(s) 1141
XcmI CCANNNNNNNNNTGG 1 cut(s) 1067
XspI CTAG 1 cut(s) 884
ZrmI AGTACT 1 cut(s) 236
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.