Rmu_sc0001169.1_g000010

RNA recognition motif

Design Primers CRISPR Design

Basic Information

Type: gene
Biological Identity
rosa_multiflora
Rmu_sc0001169.1
OG0004676
Physical Location & Seq
Forward (+)
68044 .. 72163
4120 bp
Loading structure...
UTR
Exon/CDS
Intron
N/A

Sequence Viewer

Length: 996 bp
atggatcaacttttctcggcgaagcctaaacccttccgtatccacagaaaatcacctatcgcttccaagatcaaatcctccatctccgtcaagctctctgaatttctcggtggttacactgacgacgtcttcctgaagaggaattctgaagttcctgcttttgataagaagaggttgtacagtaatcctgttgagatggagaaactggatcatgttgataatgcagtgagtgaacctcattttgcaaataatattggccggaagaggctctttggtgaaatcagtcctgaatgcgaagatacctcacagcattttaagaaatcagatgtggccacaaatgatttgaagaccatacaggaattgcttcatttgaaagaaaaattgaatcaagttgaaatcgaaatgtcaaagcttcggtcaaagcaggtggagtttgaaaaaaatgatgggaaaacgaatcacttgctgaattctggggcaccgaaagattcagaggaaacttttgagtcaagaactgtgttggtgacaaatgtacattttgcagcaactagagaagctttgtccctgtactttgccaagtgtggaatgattgttaacgtaatgatcttgacagacacagtgacttcaaagccaaaagggtctgcttatgttactttcgctagcaaggagtctgttgacaaagcagtggcattgagtggagcgacattcttttgtaggaccttgaaggttctaaggatggcaggagcagctgtggaggcatcagcaccaacccagcttcccgagatgtcttccctcaatattccacatggcaatagaattgctttccccagcaaaccacattatatgaggtctactctgcagtggagaagagagcctggcgctgtcccatcagagcttccatgcccagctggtgttggagtttcctcttctgcccacgagcaacatatttctatttccaacaaagaccggaagacatcatcattagagcccccatga
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
PWI RRM_1

Protein Analysis

331

Amino Acids

36.74

Weight (kDa)

9.09

Isoelectric Point (pI)

48.14

Instability Index
Protein Domains (Pfam)
Domain Name Pfam ID Position E-value Description
RRM_1 PF00076 173 - 241 2.2e-13 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)
AarI CACCTGC 1 cut(s) 415
AatII GACGTC 1 cut(s) 129
Acc36I ACCTGC 1 cut(s) 415
AccB1I GGYRCC 1 cut(s) 478
AccI GTMKAC 1 cut(s) 851
AclWI GGATC 2 cut(s) 12, 216
AcoI YGGCCR 2 cut(s) 256, 330
AcsI RAATTY 3 cut(s) 101, 142, 469
AcuI CTGAAG 2 cut(s) 155, 168
AcyI GRCGYC 1 cut(s) 126
AfaI GTAC 3 cut(s) 179, 534, 569
AgsI TTSAA 7 cut(s) 346, 373, 385, 395, 437, 627, 724
AjnI CCWGG 1 cut(s) 874
AluBI AGCT 7 cut(s) 94, 412, 557, 749, 775, 895, 908
AluI AGCT 7 cut(s) 94, 412, 557, 749, 775, 895, 908
AlwI GGATC 2 cut(s) 12, 216
Ama87I CYCGRG 1 cut(s) 779
AoxI GGCC 2 cut(s) 256, 330
ApeKI GCWGC 2 cut(s) 542, 746
ApoI RAATTY 3 cut(s) 101, 142, 469
ArsI GACNNNNNNTTYG 2 cut(s) 401, 433
Asp700I GAANNNNTTC 1 cut(s) 363
AspLEI GCGC 1 cut(s) 881
AspS9I GGNCC 1 cut(s) 717
AsuHPI GGTGA 3 cut(s) 45, 287, 535
AsuNHI GCTAGC 1 cut(s) 659
AvaI CYCGRG 1 cut(s) 779
AvaII GGWCC 1 cut(s) 717
BaeGI GKGCMC 1 cut(s) 481
BalI TGGCCA 1 cut(s) 332
BanI GGYRCC 1 cut(s) 478
BanII GRGCYC 1 cut(s) 990
BarI GAAGNNNNNNTAC 2 cut(s) 161, 193
BauI CACGAG 1 cut(s) 935
BbsI GAAGAC 4 cut(s) 121, 353, 780, 977
BbvI GCAGC 2 cut(s) 554, 758
BccI CCATC 5 cut(s) 89, 190, 440, 730, 895
BcgI CGANNNNNNTGC 2 cut(s) 445, 479
BciT130I CCWGG 1 cut(s) 876
BciVI GTATCC 1 cut(s) 50
BfaI CTAG 2 cut(s) 549, 660
BfmI CTRYAG 1 cut(s) 857
BfoI RGCGCY 1 cut(s) 882
BfuAI ACCTGC 1 cut(s) 415
BfuI GTATCC 1 cut(s) 50
BisI GCNGC 2 cut(s) 543, 747
BlsI GCNGC 2 cut(s) 544, 748
Bme1390I CCNGG 1 cut(s) 876
Bme18I GGWCC 1 cut(s) 717
BmeT110I CYCGRG 1 cut(s) 779
BmgT120I GGNCC 1 cut(s) 717
BmiI GGNNCC 1 cut(s) 480
BmrFI CCNGG 1 cut(s) 876
BmsI GCATC 1 cut(s) 767
BmtI GCTAGC 1 cut(s) 663
BpiI GAAGAC 4 cut(s) 121, 353, 780, 977
BplI GAGNNNNNCTC 4 cut(s) 220, 252, 838, 870
BsaHI GRCGYC 1 cut(s) 126
BsaWI WCCGGW 1 cut(s) 966
BsaXI ACNNNNNCTCC 2 cut(s) 735, 765
Bse1I ACTGG 1 cut(s) 210
BseBI CCWGG 1 cut(s) 876
BseGI GGATG 1 cut(s) 741
BseNI ACTGG 1 cut(s) 210
BseSI GKGCMC 1 cut(s) 481
BseXI GCAGC 2 cut(s) 554, 758
BseYI CCCAGC 3 cut(s) 771, 827, 904
BshFI GGCC 2 cut(s) 258, 332
BshNI GGYRCC 1 cut(s) 478
BsiHKCI CYCGRG 1 cut(s) 779
BsiSI CCGG 2 cut(s) 259, 967
BslFI GGGAC 2 cut(s) 547, 869
BsmFI GGGAC 2 cut(s) 547, 869
BsmI GAATGC 1 cut(s) 296
BsnI GGCC 2 cut(s) 258, 332
BsoBI CYCGRG 1 cut(s) 779
Bsp1286I GDGCHC 2 cut(s) 481, 990
Bsp1407I TGTACA 2 cut(s) 177, 532
Bsp143I GATC 4 cut(s) 4, 69, 208, 603
BspANI GGCC 2 cut(s) 258, 332
BspLI GGNNCC 1 cut(s) 480
BspMAI CTGCAG 1 cut(s) 861
BspMI ACCTGC 1 cut(s) 415
BspOI GCTAGC 1 cut(s) 663
BspPI GGATC 2 cut(s) 12, 216
BspT107I GGYRCC 1 cut(s) 478
BsrGI TGTACA 2 cut(s) 177, 532
BsrI ACTGG 1 cut(s) 210
BssMI GATC 4 cut(s) 4, 69, 208, 603
BssNI GRCGYC 1 cut(s) 126
BssSI CACGAG 1 cut(s) 935
Bst2BI CACGAG 1 cut(s) 935
Bst2UI CCWGG 1 cut(s) 876
Bst4CI ACNGT 3 cut(s) 182, 517, 619
Bst6I CTCTTC 5 cut(s) 131, 164, 257, 862, 931
BstACI GRCGYC 1 cut(s) 126
BstAUI TGTACA 2 cut(s) 177, 532
BstC8I GCNNGC 1 cut(s) 661
BstDEI CTNAG 1 cut(s) 731
BstF5I GGATG 1 cut(s) 741
BstH2I RGCGCY 1 cut(s) 882
BstHHI GCGC 1 cut(s) 881
BstKTI GATC 4 cut(s) 7, 72, 211, 606
BstMBI GATC 4 cut(s) 4, 69, 208, 603
BstMWI GCNNNNNNNGC 2 cut(s) 746, 755
BstNI CCWGG 1 cut(s) 876
BstSCI CCNGG 1 cut(s) 874
BstSFI CTRYAG 1 cut(s) 857
BstSLI GKGCMC 1 cut(s) 481
BstV1I GCAGC 2 cut(s) 554, 758
BstV2I GAAGAC 4 cut(s) 121, 353, 780, 977
BsuI GTATCC 1 cut(s) 50
BsuRI GGCC 2 cut(s) 258, 332
BtsCI GGATG 1 cut(s) 741
BtsI GCAGTG 3 cut(s) 231, 690, 866
BtsIMutI CAGTG 5 cut(s) 117, 231, 624, 690, 866
BveI ACCTGC 1 cut(s) 415
Cac8I GCNNGC 1 cut(s) 661
CfoI GCGC 1 cut(s) 881
Cfr13I GGNCC 1 cut(s) 717
Csp6I GTAC 3 cut(s) 178, 533, 568
CspCI CAANNNNNGTGG 2 cut(s) 408, 443
CviAII CATG 4 cut(s) 212, 806, 900, 993
CviQI GTAC 3 cut(s) 178, 533, 568
DdeI CTNAG 1 cut(s) 731
DpnI GATC 4 cut(s) 6, 71, 210, 605
DpnII GATC 4 cut(s) 4, 69, 208, 603
EaeI YGGCCR 2 cut(s) 256, 330
Eam1104I CTCTTC 5 cut(s) 131, 164, 257, 862, 931
EarI CTCTTC 5 cut(s) 131, 164, 257, 862, 931
Eco24I GRGCYC 1 cut(s) 990
Eco47I GGWCC 1 cut(s) 717
Eco57I CTGAAG 2 cut(s) 155, 168
Eco88I CYCGRG 1 cut(s) 779
EcoO109I RGGNCCY 1 cut(s) 717
EcoRI GAATTC 2 cut(s) 142, 469
EcoRII CCWGG 1 cut(s) 874
EcoT38I GRGCYC 1 cut(s) 990
FaeI CATG 4 cut(s) 215, 809, 903, 996
FaiI YATR 9 cut(s) 213, 353, 648, 807, 843, 845, 901, 945, 994
FalI AAGNNNNNCTT 2 cut(s) 254, 286
FaqI GGGAC 2 cut(s) 547, 869
FatI CATG 4 cut(s) 211, 805, 899, 992
FblI GTMKAC 1 cut(s) 851
Fnu4HI GCNGC 2 cut(s) 543, 747
FokI GGATG 1 cut(s) 748
FriOI GRGCYC 1 cut(s) 990
Fsp4HI GCNGC 2 cut(s) 543, 747
FspBI CTAG 2 cut(s) 549, 660
GlaI GCGC 1 cut(s) 880
GluI GCNGC 2 cut(s) 543, 747
GsaI CCCAGC 3 cut(s) 775, 831, 908
HaeII RGCGCY 1 cut(s) 882
HaeIII GGCC 2 cut(s) 258, 332
HapII CCGG 2 cut(s) 259, 967
HhaI GCGC 1 cut(s) 881
Hin1I GRCGYC 1 cut(s) 126
Hin1II CATG 4 cut(s) 215, 809, 903, 996
Hin6I GCGC 1 cut(s) 879
HinP1I GCGC 1 cut(s) 879
HincII GTYRAC 2 cut(s) 595, 676
HindII GTYRAC 2 cut(s) 595, 676
HindIII AAGCTT 2 cut(s) 410, 555
HinfI GANTC 5 cut(s) 385, 457, 488, 506, 668
HpaI GTTAAC 1 cut(s) 595
HpaII CCGG 2 cut(s) 259, 967
HphI GGTGA 3 cut(s) 45, 287, 535
Hpy166II GTNNAC 4 cut(s) 233, 595, 676, 852
Hpy188I TCNGA 5 cut(s) 100, 148, 325, 493, 892
Hpy188III TCNNGA 5 cut(s) 133, 287, 510, 607, 779
Hpy8I GTNNAC 4 cut(s) 233, 595, 676, 852
Hpy99I CGWCG 1 cut(s) 128
HpyAV CCTTC 2 cut(s) 43, 718
HpyCH4III ACNGT 3 cut(s) 182, 517, 619
HpyCH4IV ACGT 2 cut(s) 126, 597
HpyCH4V TGCA 4 cut(s) 224, 245, 542, 859
HpyF10VI GCNNNNNNNGC 2 cut(s) 746, 755
HpyF3I CTNAG 1 cut(s) 731
HpySE526I ACGT 2 cut(s) 126, 597
Hsp92I GRCGYC 1 cut(s) 126
Hsp92II CATG 4 cut(s) 215, 809, 903, 996
HspAI GCGC 1 cut(s) 879
KspAI GTTAAC 1 cut(s) 595
Kzo9I GATC 4 cut(s) 4, 69, 208, 603
LmnI GCTCC 2 cut(s) 698, 743
Lsp1109I GCAGC 2 cut(s) 554, 758
LweI GCATC 1 cut(s) 767
MaeI CTAG 2 cut(s) 549, 660
MaeII ACGT 2 cut(s) 126, 597
MaeIII GTNAC 4 cut(s) 113, 523, 619, 649
MalI GATC 4 cut(s) 6, 71, 210, 605
MboI GATC 4 cut(s) 4, 69, 208, 603
MhlI GDGCHC 2 cut(s) 481, 990
MlsI TGGCCA 1 cut(s) 332
MluCI AATT 6 cut(s) 101, 142, 359, 380, 469, 816
MluNI TGGCCA 1 cut(s) 332
MlyI GAGTC 2 cut(s) 515, 677
MmeI TCCRAC 2 cut(s) 895, 981
Mox20I TGGCCA 1 cut(s) 332
MroXI GAANNNNTTC 1 cut(s) 363
MscI TGGCCA 1 cut(s) 332
MseI TTAA 2 cut(s) 315, 594
Msp20I TGGCCA 1 cut(s) 332
MspA1I CMGCKG 2 cut(s) 749, 908
MspI CCGG 2 cut(s) 259, 967
MspR9I CCNGG 1 cut(s) 876
Mva1269I GAATGC 1 cut(s) 296
MvaI CCWGG 1 cut(s) 876
MwoI GCNNNNNNNGC 2 cut(s) 746, 755
NdeII GATC 4 cut(s) 4, 69, 208, 603
NheI GCTAGC 1 cut(s) 659
NlaIII CATG 4 cut(s) 215, 809, 903, 996
NlaIV GGNNCC 1 cut(s) 480
NmuCI GTSAC 2 cut(s) 523, 619
PaqCI CACCTGC 1 cut(s) 415
PctI GAATGC 1 cut(s) 296
PdmI GAANNNNTTC 1 cut(s) 363
PfeI GAWTC 3 cut(s) 385, 457, 488
PflFI GACNNNGTC 1 cut(s) 125
PkrI GCNGC 2 cut(s) 544, 748
PleI GAGTC 2 cut(s) 514, 676
PpsI GAGTC 2 cut(s) 514, 676
PpuMI RGGWCCY 1 cut(s) 717
Psp5II RGGWCCY 1 cut(s) 717
Psp6I CCWGG 1 cut(s) 874
PspFI CCCAGC 3 cut(s) 771, 827, 904
PspGI CCWGG 1 cut(s) 874
PspN4I GGNNCC 1 cut(s) 480
PspPI GGNCC 1 cut(s) 717
PspPPI RGGWCCY 1 cut(s) 717
PstI CTGCAG 1 cut(s) 861
PsyI GACNNNGTC 1 cut(s) 125
PvuII CAGCTG 2 cut(s) 749, 908
RsaI GTAC 3 cut(s) 179, 534, 569
RsaNI GTAC 3 cut(s) 178, 533, 568
SaqAI TTAA 2 cut(s) 315, 594
SatI GCNGC 2 cut(s) 543, 747
Sau3AI GATC 4 cut(s) 4, 69, 208, 603
Sau96I GGNCC 1 cut(s) 717
SchI GAGTC 2 cut(s) 515, 677
ScrFI CCNGG 1 cut(s) 876
SduI GDGCHC 2 cut(s) 481, 990
SfaNI GCATC 1 cut(s) 767
SfcI CTRYAG 1 cut(s) 857
SinI GGWCC 1 cut(s) 717
Sse9I AATT 6 cut(s) 101, 142, 359, 380, 469, 816
SspI AATATT 2 cut(s) 253, 799
SspMI CTAG 2 cut(s) 549, 660
StyD4I CCNGG 1 cut(s) 874
TaaI ACNGT 3 cut(s) 182, 517, 619
TaiI ACGT 2 cut(s) 129, 600
TaqI TCGA 1 cut(s) 399
TaqII GACCGA 1 cut(s) 405
TasI AATT 6 cut(s) 101, 142, 359, 380, 469, 816
TatI WGTACW 3 cut(s) 177, 532, 567
TfiI GAWTC 3 cut(s) 385, 457, 488
Tru1I TTAA 2 cut(s) 315, 594
Tru9I TTAA 2 cut(s) 315, 594
TscAI CASTG 5 cut(s) 124, 231, 624, 690, 866
TseFI GTSAC 2 cut(s) 523, 619
TseI GCWGC 2 cut(s) 542, 746
Tsp45I GTSAC 2 cut(s) 523, 619
TspDTI ATGAA 1 cut(s) 356
TspGWI ACGGA 2 cut(s) 26, 76
TspRI CASTG 5 cut(s) 124, 231, 624, 690, 866
Tth111I GACNNNGTC 1 cut(s) 125
VpaK11BI GGWCC 1 cut(s) 717
XapI RAATTY 3 cut(s) 101, 142, 469
XmiI GTMKAC 1 cut(s) 851
XmnI GAANNNNTTC 1 cut(s) 363
XspI CTAG 2 cut(s) 549, 660
ZraI GACGTC 1 cut(s) 127
Using CommOnly database (standard laboratory enzymes). Scanned on CDS sequence.