Rroxscaffold_5G00352380

polyadenylate-binding protein

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_roxburghii
GWHEROQ00000005
OG0004565
Physical Location & Seq
Forward (+)
29374860 .. 29377949
3090 bp
Loading structure...
UTR
Exon/CDS
Intron
Rroxscaffold_5G00352380.1

Sequence Viewer

Length: 627 bp
ATGTTATTGGGATTACAAACGGTTGCTGATCTTGAAATGGATATAGTTGCCCTGGAATGTGATTCTGAAGTGTTGGTTAATCTGATGAATAGTGGATTTGATGCTATGCACCCTGTGAAGACGGCCCATGCGTATAGGTGTTGCAATGCCAAAAAATCATCTGGATATCAACAACAGTACTCTTCACAAGGATTGGTATTGGCTGGAGGTGGTGGACATGCAAATGGTGCCATTGCCCAAGGTTCTCAGTCTGATGGCGAGCCCAATAACACAACTATATTTGTTGGAGGGCTTGATTCTGATGTCAATGAGGAAGACCTCAGGCAGCCATGTTCTCAATTTGGTGAAGTTGTCTCTGTGAAAATACCGGTTGGAAAAGCATGCGGTTTTGTTCAGTTTGCTAATAGGAAGGATGCTGAGAATGCAATGAATATGCTGAATGCAACTGTTATTGGAAAGCAAACAGTTCGTCTGTCTTGGGGTCGCAGTCAAGGCAACAAGCAGTGGAGATCGGACTCAAGTAACCAGTGGAACTATGGAGGACATTATGGAGGGCAGGGGTATGGTGGGTACACAAATGCTGCGCCACAGAATCCAGATCTGAGTACATGCTGCAGCTGCGGTTAA
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
RRM_1

Protein Analysis

208

Amino Acids

22.1

Weight (kDa)

5.27

Isoelectric Point (pI)

46.43

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 93 - 156 6.5e-16 RNA recognition motif
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) 227
AciI CCGC 2 cut(s) 384, 621
AcuI CTGAAG 1 cut(s) 87
AdeI CACNNNGTG 1 cut(s) 115
AfaI GTAC 3 cut(s) 179, 572, 607
AgeI ACCGGT 1 cut(s) 367
AgsI TTSAA 1 cut(s) 35
AjnI CCWGG 1 cut(s) 51
AluBI AGCT 1 cut(s) 618
AluI AGCT 1 cut(s) 618
Alw26I GTCTC 1 cut(s) 358
AoxI GGCC 1 cut(s) 123
ApeKI GCWGC 5 cut(s) 325, 581, 612, 615, 618
ArsI GACNNNNNNTTYG 2 cut(s) 454, 486
AsiGI ACCGGT 1 cut(s) 367
AspLEI GCGC 1 cut(s) 586
AspS9I GGNCC 1 cut(s) 124
AsuHPI GGTGA 1 cut(s) 356
AxyI CCTNAGG 1 cut(s) 320
BanI GGYRCC 1 cut(s) 227
BanII GRGCYC 1 cut(s) 264
BbsI GAAGAC 2 cut(s) 125, 321
BbvI GCAGC 4 cut(s) 337, 568, 599, 605
BccI CCATC 1 cut(s) 248
BceAI ACGGC 1 cut(s) 138
BcgI CGANNNNNNTGC 2 cut(s) 449, 483
BciT130I CCWGG 1 cut(s) 53
BcoDI GTCTC 1 cut(s) 358
BfmI CTRYAG 1 cut(s) 613
BglII AGATCT 1 cut(s) 598
BisI GCNGC 5 cut(s) 326, 582, 613, 616, 619
BlsI GCNGC 5 cut(s) 327, 583, 614, 617, 620
BmcAI AGTACT 1 cut(s) 179
Bme1390I CCNGG 1 cut(s) 53
BmgT120I GGNCC 1 cut(s) 124
BmiI GGNNCC 1 cut(s) 229
BmrFI CCNGG 1 cut(s) 53
BmsI GCATC 2 cut(s) 91, 403
BpiI GAAGAC 2 cut(s) 125, 321
BpmI CTGGAG 1 cut(s) 225
BpuEI CTTGAG 1 cut(s) 502
BsaJI CCNNGG 2 cut(s) 51, 238
BsaWI WCCGGW 1 cut(s) 367
Bse118I RCCGGY 1 cut(s) 367
Bse1I ACTGG 1 cut(s) 526
Bse21I CCTNAGG 1 cut(s) 320
Bse3DI GCAATG 3 cut(s) 151, 231, 432
BseBI CCWGG 1 cut(s) 53
BseDI CCNNGG 2 cut(s) 51, 238
BseGI GGATG 1 cut(s) 418
BseMI GCAATG 3 cut(s) 151, 231, 432
BseMII CTCAG 4 cut(s) 260, 334, 408, 593
BseNI ACTGG 1 cut(s) 526
BseXI GCAGC 4 cut(s) 337, 568, 599, 605
BshFI GGCC 1 cut(s) 125
BshNI GGYRCC 1 cut(s) 227
BshTI ACCGGT 1 cut(s) 367
BsiSI CCGG 1 cut(s) 368
BsmAI GTCTC 1 cut(s) 358
BsmI GAATGC 2 cut(s) 427, 445
BsnI GGCC 1 cut(s) 125
Bsp1286I GDGCHC 1 cut(s) 264
Bsp143I GATC 3 cut(s) 28, 509, 598
BspACI CCGC 2 cut(s) 384, 621
BspANI GGCC 1 cut(s) 125
BspCNI CTCAG 4 cut(s) 259, 333, 409, 594
BspLI GGNNCC 1 cut(s) 229
BspMAI CTGCAG 1 cut(s) 617
BspT107I GGYRCC 1 cut(s) 227
BsrDI GCAATG 3 cut(s) 151, 231, 432
BsrFI RCCGGY 1 cut(s) 367
BsrI ACTGG 1 cut(s) 526
BssAI RCCGGY 1 cut(s) 367
BssECI CCNNGG 2 cut(s) 51, 238
BssMI GATC 3 cut(s) 28, 509, 598
BssT1I CCWWGG 1 cut(s) 238
Bst2UI CCWGG 1 cut(s) 53
Bst4CI ACNGT 4 cut(s) 22, 177, 448, 466
Bst6I CTCTTC 1 cut(s) 187
BstAPI GCANNNNNTGC 1 cut(s) 227
BstC8I GCNNGC 2 cut(s) 260, 382
BstDEI CTNAG 4 cut(s) 246, 320, 417, 602
BstF5I GGATG 1 cut(s) 418
BstHHI GCGC 1 cut(s) 586
BstKTI GATC 3 cut(s) 31, 512, 601
BstMAI GTCTC 1 cut(s) 358
BstMBI GATC 3 cut(s) 28, 509, 598
BstMWI GCNNNNNNNGC 4 cut(s) 227, 422, 492, 618
BstNI CCWGG 1 cut(s) 53
BstNSI RCATGY 3 cut(s) 221, 384, 612
BstSCI CCNGG 1 cut(s) 51
BstSFI CTRYAG 1 cut(s) 613
BstV1I GCAGC 4 cut(s) 337, 568, 599, 605
BstV2I GAAGAC 2 cut(s) 125, 321
BstX2I RGATCY 1 cut(s) 598
BstYI RGATCY 1 cut(s) 598
Bsu36I CCTNAGG 1 cut(s) 320
BsuRI GGCC 1 cut(s) 125
BtsCI GGATG 1 cut(s) 418
BtsI GCAGTG 1 cut(s) 509
BtsIMutI CAGTG 2 cut(s) 509, 533
Cac8I GCNNGC 2 cut(s) 260, 382
CfoI GCGC 1 cut(s) 586
Cfr10I RCCGGY 1 cut(s) 367
Cfr13I GGNCC 1 cut(s) 124
Csp6I GTAC 3 cut(s) 178, 571, 606
CspAI ACCGGT 1 cut(s) 367
CviAII CATG 5 cut(s) 128, 218, 330, 381, 609
CviJI RGCY 6 cut(s) 125, 203, 262, 292, 328, 618
CviKI_1 RGCY 6 cut(s) 125, 203, 262, 292, 328, 618
CviQI GTAC 3 cut(s) 178, 571, 606
DdeI CTNAG 4 cut(s) 246, 320, 417, 602
DpnI GATC 3 cut(s) 30, 511, 600
DpnII GATC 3 cut(s) 28, 509, 598
DraIII CACNNNGTG 1 cut(s) 115
Eam1104I CTCTTC 1 cut(s) 187
EarI CTCTTC 1 cut(s) 187
Eco130I CCWWGG 1 cut(s) 238
Eco24I GRGCYC 1 cut(s) 264
Eco32I GATATC 1 cut(s) 167
Eco57I CTGAAG 1 cut(s) 87
Eco81I CCTNAGG 1 cut(s) 320
EcoRII CCWGG 1 cut(s) 51
EcoRV GATATC 1 cut(s) 167
EcoT14I CCWWGG 1 cut(s) 238
EcoT38I GRGCYC 1 cut(s) 264
ErhI CCWWGG 1 cut(s) 238
FaeI CATG 5 cut(s) 131, 221, 333, 384, 612
FatI CATG 5 cut(s) 127, 217, 329, 380, 608
Fnu4HI GCNGC 5 cut(s) 326, 582, 613, 616, 619
FokI GGATG 1 cut(s) 425
FriOI GRGCYC 1 cut(s) 264
Fsp4HI GCNGC 5 cut(s) 326, 582, 613, 616, 619
GlaI GCGC 1 cut(s) 585
GluI GCNGC 5 cut(s) 326, 582, 613, 616, 619
GsuI CTGGAG 1 cut(s) 225
HaeIII GGCC 1 cut(s) 125
HapII CCGG 1 cut(s) 368
HhaI GCGC 1 cut(s) 586
Hin1II CATG 5 cut(s) 131, 221, 333, 384, 612
Hin6I GCGC 1 cut(s) 584
HinP1I GCGC 1 cut(s) 584
HinfI GANTC 4 cut(s) 62, 296, 515, 592
HpaII CCGG 1 cut(s) 368
HphI GGTGA 1 cut(s) 356
Hpy166II GTNNAC 2 cut(s) 215, 573
Hpy188I TCNGA 6 cut(s) 67, 84, 253, 301, 514, 603
Hpy188III TCNNGA 3 cut(s) 32, 162, 596
Hpy8I GTNNAC 2 cut(s) 215, 573
HpyAV CCTTC 1 cut(s) 403
HpyCH4III ACNGT 4 cut(s) 22, 177, 448, 466
HpyCH4V TGCA 6 cut(s) 109, 144, 221, 425, 443, 615
HpyF10VI GCNNNNNNNGC 4 cut(s) 227, 422, 492, 618
HpyF3I CTNAG 4 cut(s) 246, 320, 417, 602
Hsp92II CATG 5 cut(s) 131, 221, 333, 384, 612
HspAI GCGC 1 cut(s) 584
Kzo9I GATC 3 cut(s) 28, 509, 598
Lsp1109I GCAGC 4 cut(s) 337, 568, 599, 605
LweI GCATC 2 cut(s) 91, 403
MaeIII GTNAC 1 cut(s) 521
MalI GATC 3 cut(s) 30, 511, 600
MboI GATC 3 cut(s) 28, 509, 598
MboII GAAGA 3 cut(s) 130, 174, 326
MflI RGATCY 1 cut(s) 598
MhlI GDGCHC 1 cut(s) 264
MluCI AATT 1 cut(s) 338
MlyI GAGTC 1 cut(s) 509
MmeI TCCRAC 2 cut(s) 265, 352
MnlI CCTC 6 cut(s) 200, 281, 304, 329, 533, 545
MseI TTAA 2 cut(s) 78, 625
MslI CAYNNNNRTG 1 cut(s) 222
MspA1I CMGCKG 1 cut(s) 618
MspI CCGG 1 cut(s) 368
MspR9I CCNGG 1 cut(s) 53
Mva1269I GAATGC 2 cut(s) 427, 445
MvaI CCWGG 1 cut(s) 53
MwoI GCNNNNNNNGC 4 cut(s) 227, 422, 492, 618
NdeII GATC 3 cut(s) 28, 509, 598
NlaIII CATG 5 cut(s) 131, 221, 333, 384, 612
NlaIV GGNNCC 1 cut(s) 229
NspI RCATGY 3 cut(s) 221, 384, 612
PaeI GCATGC 1 cut(s) 384
PcsI WCGNNNNNNNCGW 1 cut(s) 128
PctI GAATGC 2 cut(s) 427, 445
PfeI GAWTC 3 cut(s) 62, 296, 592
PinAI ACCGGT 1 cut(s) 367
PkrI GCNGC 5 cut(s) 327, 583, 614, 617, 620
PleI GAGTC 1 cut(s) 509
PpsI GAGTC 1 cut(s) 509
Psp6I CCWGG 1 cut(s) 51
PspGI CCWGG 1 cut(s) 51
PspN4I GGNNCC 1 cut(s) 229
PspPI GGNCC 1 cut(s) 124
PstI CTGCAG 1 cut(s) 617
PsuI RGATCY 1 cut(s) 598
PvuII CAGCTG 1 cut(s) 618
RsaI GTAC 3 cut(s) 179, 572, 607
RsaNI GTAC 3 cut(s) 178, 571, 606
RseI CAYNNNNRTG 1 cut(s) 222
SaqAI TTAA 2 cut(s) 78, 625
SatI GCNGC 5 cut(s) 326, 582, 613, 616, 619
Sau3AI GATC 3 cut(s) 28, 509, 598
Sau96I GGNCC 1 cut(s) 124
ScaI AGTACT 1 cut(s) 179
SchI GAGTC 1 cut(s) 509
ScrFI CCNGG 1 cut(s) 53
SduI GDGCHC 1 cut(s) 264
SetI ASST 5 cut(s) 140, 211, 244, 321, 620
SfaNI GCATC 2 cut(s) 91, 403
SfcI CTRYAG 1 cut(s) 613
SmiMI CAYNNNNRTG 1 cut(s) 222
SmlI CTYRAG 1 cut(s) 517
SmoI CTYRAG 1 cut(s) 517
SphI GCATGC 1 cut(s) 384
Sse9I AATT 1 cut(s) 338
SsiI CCGC 2 cut(s) 384, 621
StyD4I CCNGG 1 cut(s) 51
StyI CCWWGG 1 cut(s) 238
TaaI ACNGT 4 cut(s) 22, 177, 448, 466
TasI AATT 1 cut(s) 338
TatI WGTACW 2 cut(s) 177, 605
TfiI GAWTC 3 cut(s) 62, 296, 592
Tru1I TTAA 2 cut(s) 78, 625
Tru9I TTAA 2 cut(s) 78, 625
TscAI CASTG 2 cut(s) 509, 533
TseI GCWGC 5 cut(s) 325, 581, 612, 615, 618
TspDTI ATGAA 2 cut(s) 101, 443
TspRI CASTG 2 cut(s) 509, 533
XceI RCATGY 3 cut(s) 221, 384, 612
XcmI CCANNNNNNNNNTGG 1 cut(s) 533
ZrmI AGTACT 1 cut(s) 179
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.