Rh5AG399200

RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain)

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_samantha
Chr5A
OG0008178
Physical Location & Seq
Reverse (-)
69177101 .. 69185562
8462 bp
Loading structure...
UTR
Exon/CDS
Intron
Rh5AG399200.1

Sequence Viewer

Length: 648 bp
ATGGTTGTGAAGAAGATTGTGGTTTGTGGTTTCACCGTTGAGAGATTTGTTAGTGAAGAATTGCTGTGGGAGCTGTTTGTTCAAGCCGGTCCTGTTGTTAATGTGTATGTTCCCAAAGATAGAGTTACGAACCTCCATCAAGGATACGGATTAGTGGAGTTCCGAAGTGAAGAGGATGCTGATTACATAAGTTTTCGTTTTCTCAATTTATTGTATAGCTCCCCGATTCCTGTTAAAGATGTTATTTATGACTATAAATTTATTGTCTTGACTGCTATGCAAGCAGTCAAGTCAGCTGATCTCGTGGAGAAAACGATACATGTTAGGCATTTCCAACAGATTTTAACATCAATTGGAAACTTGTGCATTTATTCAATTGTTGTTGGAATGGTTATTGGGATATCAGTTGGAACTCAGAGAAGGGCTGCCCATTCTTACTGGTGCCAACAGCAGGTTAAGCAACATGGCAAGTATCAAGGATGTGTCCCAAGGATAACAGACAGTAGCTCGACTTGTAGACATGGAGCTGCAAGTAGGCCTAGCAAGTCATCAACACTTGATTCTCCGGCTCTTATGGCATTCATTTTGTTCCGGATAATATTTCGTAGCATCAATGTGATCTCATTGTGCAATTTCTTTCTCCTCTGA
Functional Annotation
Gene Ontology
Molecular Function
Biological Process
Cellular Component
No ontology terms assigned.
KEGG Pathways
Metabolic & Signaling
ko03040 map03040
Pfam Domains
Protein Families
RRM_1

Protein Analysis

215

Amino Acids

24.33

Weight (kDa)

9.04

Isoelectric Point (pI)

36.26

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 16 - 62 2.3e-10 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)
Acc36I ACCTGC 1 cut(s) 442
AccB1I GGYRCC 1 cut(s) 441
AccI GTMKAC 1 cut(s) 517
AccIII TCCGGA 1 cut(s) 591
AcsI RAATTY 1 cut(s) 257
AfiI CCNNNNNNNGG 1 cut(s) 451
AflIII ACRYGT 1 cut(s) 319
AgsI TTSAA 2 cut(s) 83, 375
AluBI AGCT 5 cut(s) 73, 219, 296, 507, 527
AluI AGCT 5 cut(s) 73, 219, 296, 507, 527
Aor13HI TCCGGA 1 cut(s) 591
AoxI GGCC 1 cut(s) 536
ApeKI GCWGC 2 cut(s) 425, 527
ApoI RAATTY 1 cut(s) 257
AspS9I GGNCC 1 cut(s) 89
AsuHPI GGTGA 1 cut(s) 25
AvaII GGWCC 1 cut(s) 89
BanI GGYRCC 1 cut(s) 441
BauI CACGAG 1 cut(s) 302
BbvI GCAGC 2 cut(s) 412, 514
BccI CCATC 1 cut(s) 144
BciVI GTATCC 1 cut(s) 137
BfaI CTAG 1 cut(s) 540
BfuAI ACCTGC 1 cut(s) 442
BfuI GTATCC 1 cut(s) 137
BisI GCNGC 2 cut(s) 426, 528
BlsI GCNGC 2 cut(s) 427, 529
Bme18I GGWCC 1 cut(s) 89
BmgT120I GGNCC 1 cut(s) 89
BmiI GGNNCC 1 cut(s) 443
BmsI GCATC 2 cut(s) 166, 618
BsaJI CCNNGG 1 cut(s) 488
BsaWI WCCGGW 1 cut(s) 591
Bsc4I CCNNNNNNNGG 1 cut(s) 451
Bse118I RCCGGY 1 cut(s) 86
Bse1I ACTGG 1 cut(s) 443
BseAI TCCGGA 1 cut(s) 591
BseDI CCNNGG 1 cut(s) 488
BseGI GGATG 2 cut(s) 181, 485
BseLI CCNNNNNNNGG 1 cut(s) 451
BseMII CTCAG 1 cut(s) 428
BseNI ACTGG 1 cut(s) 443
BseRI GAGGAG 1 cut(s) 632
BseXI GCAGC 2 cut(s) 412, 514
BshFI GGCC 1 cut(s) 538
BshNI GGYRCC 1 cut(s) 441
BsiSI CCGG 3 cut(s) 87, 566, 592
BslFI GGGAC 1 cut(s) 470
BslI CCNNNNNNNGG 1 cut(s) 451
BsmFI GGGAC 1 cut(s) 470
BsmI GAATGC 1 cut(s) 578
BsnI GGCC 1 cut(s) 538
Bsp13I TCCGGA 1 cut(s) 591
Bsp143I GATC 2 cut(s) 298, 618
BspANI GGCC 1 cut(s) 538
BspCNI CTCAG 1 cut(s) 427
BspEI TCCGGA 1 cut(s) 591
BspLI GGNNCC 1 cut(s) 443
BspMI ACCTGC 1 cut(s) 442
BspT107I GGYRCC 1 cut(s) 441
BsrFI RCCGGY 1 cut(s) 86
BsrI ACTGG 1 cut(s) 443
BssAI RCCGGY 1 cut(s) 86
BssECI CCNNGG 1 cut(s) 488
BssMI GATC 2 cut(s) 298, 618
BssSI CACGAG 1 cut(s) 302
BssT1I CCWWGG 1 cut(s) 488
Bst2BI CACGAG 1 cut(s) 302
Bst4CI ACNGT 2 cut(s) 37, 503
Bst6I CTCTTC 1 cut(s) 165
BstC8I GCNNGC 1 cut(s) 282
BstDEI CTNAG 1 cut(s) 414
BstF5I GGATG 2 cut(s) 181, 485
BstKTI GATC 2 cut(s) 301, 621
BstMBI GATC 2 cut(s) 298, 618
BstMWI GCNNNNNNNGC 4 cut(s) 70, 281, 457, 575
BstNSI RCATGY 1 cut(s) 323
BstV1I GCAGC 2 cut(s) 412, 514
BsuI GTATCC 1 cut(s) 137
BsuRI GGCC 1 cut(s) 538
BtsCI GGATG 2 cut(s) 181, 485
BveI ACCTGC 1 cut(s) 442
Cac8I GCNNGC 1 cut(s) 282
Cfr10I RCCGGY 1 cut(s) 86
Cfr13I GGNCC 1 cut(s) 89
CviAII CATG 3 cut(s) 320, 464, 521
CviJI RGCY 9 cut(s) 73, 86, 219, 296, 425, 507, 527, 538, 569
CviKI_1 RGCY 9 cut(s) 73, 86, 219, 296, 425, 507, 527, 538, 569
DdeI CTNAG 1 cut(s) 414
DpnI GATC 2 cut(s) 300, 620
DpnII GATC 2 cut(s) 298, 618
Eam1104I CTCTTC 1 cut(s) 165
EarI CTCTTC 1 cut(s) 165
Eco130I CCWWGG 1 cut(s) 488
Eco147I AGGCCT 1 cut(s) 538
Eco32I GATATC 1 cut(s) 402
Eco47I GGWCC 1 cut(s) 89
EcoRV GATATC 1 cut(s) 402
EcoT14I CCWWGG 1 cut(s) 488
ErhI CCWWGG 1 cut(s) 488
FaeI CATG 3 cut(s) 323, 467, 524
FaqI GGGAC 1 cut(s) 470
FatI CATG 3 cut(s) 319, 463, 520
FblI GTMKAC 1 cut(s) 517
Fnu4HI GCNGC 2 cut(s) 426, 528
FokI GGATG 2 cut(s) 188, 492
Fsp4HI GCNGC 2 cut(s) 426, 528
FspBI CTAG 1 cut(s) 540
GluI GCNGC 2 cut(s) 426, 528
HaeIII GGCC 1 cut(s) 538
HapII CCGG 3 cut(s) 87, 566, 592
Hin1II CATG 3 cut(s) 323, 467, 524
HinfI GANTC 2 cut(s) 226, 560
HpaII CCGG 3 cut(s) 87, 566, 592
HphI GGTGA 1 cut(s) 25
Hpy166II GTNNAC 1 cut(s) 518
Hpy188I TCNGA 3 cut(s) 164, 417, 647
Hpy188III TCNNGA 2 cut(s) 268, 592
Hpy8I GTNNAC 1 cut(s) 518
HpyAV CCTTC 1 cut(s) 414
HpyCH4III ACNGT 2 cut(s) 37, 503
HpyCH4V TGCA 4 cut(s) 280, 366, 530, 630
HpyF10VI GCNNNNNNNGC 4 cut(s) 70, 281, 457, 575
HpyF3I CTNAG 1 cut(s) 414
Hsp92II CATG 3 cut(s) 323, 467, 524
Kpn2I TCCGGA 1 cut(s) 591
Kzo9I GATC 2 cut(s) 298, 618
LmnI GCTCC 3 cut(s) 70, 224, 524
LpnPI CCDG 7 cut(s) 100, 105, 243, 424, 437, 579, 605
Lsp1109I GCAGC 2 cut(s) 412, 514
LweI GCATC 2 cut(s) 166, 618
MaeI CTAG 1 cut(s) 540
MaeIII GTNAC 1 cut(s) 124
MalI GATC 2 cut(s) 300, 620
MboI GATC 2 cut(s) 298, 618
MboII GAAGA 4 cut(s) 22, 25, 68, 182
MfeI CAATTG 2 cut(s) 351, 375
MluCI AATT 6 cut(s) 59, 205, 257, 351, 375, 631
MmeI TCCRAC 3 cut(s) 358, 364, 388
MnlI CCTC 2 cut(s) 143, 166
MroI TCCGGA 1 cut(s) 591
MseI TTAA 4 cut(s) 99, 234, 344, 456
MslI CAYNNNNRTG 1 cut(s) 614
MspA1I CMGCKG 1 cut(s) 296
MspI CCGG 3 cut(s) 87, 566, 592
MunI CAATTG 2 cut(s) 351, 375
Mva1269I GAATGC 1 cut(s) 578
MwoI GCNNNNNNNGC 4 cut(s) 70, 281, 457, 575
NdeII GATC 2 cut(s) 298, 618
NlaIII CATG 3 cut(s) 323, 467, 524
NlaIV GGNNCC 1 cut(s) 443
NspI RCATGY 1 cut(s) 323
PceI AGGCCT 1 cut(s) 538
PciI ACATGT 1 cut(s) 319
PctI GAATGC 1 cut(s) 578
PfeI GAWTC 2 cut(s) 226, 560
PkrI GCNGC 2 cut(s) 427, 529
PscI ACATGT 1 cut(s) 319
PspN4I GGNNCC 1 cut(s) 443
PspPI GGNCC 1 cut(s) 89
PvuII CAGCTG 1 cut(s) 296
RseI CAYNNNNRTG 1 cut(s) 614
SaqAI TTAA 4 cut(s) 99, 234, 344, 456
SatI GCNGC 2 cut(s) 426, 528
Sau3AI GATC 2 cut(s) 298, 618
Sau96I GGNCC 1 cut(s) 89
SetI ASST 7 cut(s) 75, 135, 221, 298, 456, 509, 529
SfaNI GCATC 2 cut(s) 166, 618
SinI GGWCC 1 cut(s) 89
SmiMI CAYNNNNRTG 1 cut(s) 614
Sse9I AATT 6 cut(s) 59, 205, 257, 351, 375, 631
SseBI AGGCCT 1 cut(s) 538
SspI AATATT 1 cut(s) 600
SspMI CTAG 1 cut(s) 540
StuI AGGCCT 1 cut(s) 538
StyI CCWWGG 1 cut(s) 488
TaaI ACNGT 2 cut(s) 37, 503
TaqI TCGA 1 cut(s) 509
TasI AATT 6 cut(s) 59, 205, 257, 351, 375, 631
TfiI GAWTC 2 cut(s) 226, 560
Tru1I TTAA 4 cut(s) 99, 234, 344, 456
Tru9I TTAA 4 cut(s) 99, 234, 344, 456
TseI GCWGC 2 cut(s) 425, 527
TspDTI ATGAA 1 cut(s) 571
TspGWI ACGGA 1 cut(s) 162
VpaK11BI GGWCC 1 cut(s) 89
XapI RAATTY 1 cut(s) 257
XceI RCATGY 1 cut(s) 323
XmiI GTMKAC 1 cut(s) 517
XspI CTAG 1 cut(s) 540
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.