RegRNA
A Regulatory RNA Motifs and Elements Finder
  Release 1.0, Jan 2006
 
 
 

Regulatory Motif Classes
 
Regulatory RNA Motifs in UTR
Riboswitches
Exonic Splicing Regulatory Motifs
Intronic Splicing Regulatory Motifs
Transcriptional Regulatory RNA Motifs
miRNA
 
Transcriptional Regulatory RNA Motifs  101 entries
Accession Name Pattern Binding Protein
R0625 ISS- Intronic splicing sequence bound by PTB CUCCGCUCCUCCUCCAGGUAAGACU PTB
R0638 Yeast Intronic Splicing Enhancer- MER1-dependent Splicing Enhancer AUACCCUU MER1
R0639 An intronic splicing enhancer in Survival Motor Neuron (SMN) pre-mRNA AAAACAAATGTTTT
R0640 An intronic splicing enhancer in PPARGC1 pre-mRNA AAAACAAATGTTTTT
R0641 An intronic splicing enhancer in MGC2599 pre-mRNA AAAACAAATGTTTT
R0642 An intronic splicing enhancer in MRPS35 pre-mRNA AAAACAAATGTTTT
R0643 An intronic splicing enhancer in HHIP pre-mRNA AAAACAAATGTTTT
R0644 An intronic splicing enhancer in RDGBB pre-mRNA AAAACAAATGTTTT
R0942 Intron enhancer TGCATG
R0943 Intron enhancer GCGCTTCTTCCCTTCCCTCCTCCCTGGCTC
AG
R0944 Intron enhancer ACTGCACCTTTCTTTGTTCCATCTCTCCAC
CTCTGCTGTG
R0945 Intron enhancer TCGCGGGTCGGTGTGTCCTGTGCCTTTCCC
TGCTT
R0946 Intron enhancer CGCTTTCCTTTCATTCTTTCACTTCTCTGC
TGCTTTT
R0947 Intron enhancer GGXXXXGGG
R0948 Intron enhancer AGGCTGGGGGCTGCTCTCTGCATGTGCTTC
CT
KSRP, p53/hnRNP F
R0949 Intron enhancer CAGGTAAGAC PTB, U1 snRNA
R0950 Intron enhancer TTCTCT PTB
R0951 Intron silencer CCCTCTCTCTATCGCTGTCTCTTGAGCCAC
GCC
R0952 Intron enhancer WGGG
R0953 Intron enhancer GTAGTGGGACCCAGAGACGGCAGAAGGGTG
GGTGGAGTCTGAATGGAG
R0954 Intron silencer TTACTCGGACACATGTGGCCTCCAAGTGTC
AGAGCCCAGTGGT
R0955 Intron silencer CTCCGCTCCTCTTC PTB
R0956 Intron enhancer AATAAA ELAV
R0957 Intron enhancer AACACCT
R0958 Intron enhancer GTAAGTCAGGCTGCATGCCTCCCACCACAC
CTGTGCTGCATGACACCTGGGGCTGACCTG
CAACAGAAGTGGGGCTGAGGGAAGGACTGT
CCTGGGGACTGGTGTCAGAGCGGGGTTGGT
GACTCTCAGGATGCCCAAAATGCCCA
R0959 Intron silencer TGCATGTCGTACTGCATGT
R0960 Intron enhancer GGGGAT
R0961 Intron enhancer GATGGGGGAGACCTGTA
R0962 Intron silencer AATGTATGGGTGTAGTGTCTTGTATAATAG
AAATTGTTCCACTGATAATTTACTCTAGTT
TTTTATTTCCTCATATTATTTTCAGTGGCT
TTTTCTTCCACATCTTTATATTTTGCACCA
CATTCAACACTGTATCTTGCACATGGCG
SF2/ASF, SC35, SRp75
R0963 Intron enhancer ATTTATTTTTAAATATTTTTTGGTTTGCCA
ATTTTCAGTTTTTCCCG
R0964 Intron enhancer TGTATGAACTTGAAGCTTATTTCAGTTGGT
TGCCTGGAACCTTCTGCATTCTTTGCTGAT
CCCCTTTTCTTCATTCTGTGCTGCATTTGG
TTTTGCATGCAATTGCATGAAGGGACTTTA
GGTTTAAAATGCTTTTGCATGTT
R0965 Intron enhancer CCTTGTCTGTGTGTCTAACTGTGTGCAC ETR-3*, Brul*
R0966 Intron enhancer ATCTTTTGTAGCCATTCCTAGAGAGCCCTT
TCCC
R0967 Intron enhancer TTACCCAACTCAACTCACC
R0968 Intron enhancer GCCCAGGCTGGAGTGCAGTA
R0969 Intron enhancer CCATCGAATGCATTTACTT
R0970 Intron enhancer ATGTTT
R0971 Intron enhancer TTT
R0972 Intron enhancer CCAAGGGAAAGCATGGGTTAACCTA
R0973 Intron enhancer CAGCCCTGGTGCATGGCACTGCCTC
R0974 Intron silencer CCTCTGCGCTTCTTCCCTTCCCTCCTCCCT
GGCTCA
PTB*, U2AF65
R0975 Intron enhancer CTCCGCTCCTCTTCCAGGTAAGAC PTB*, ASF/SF2*,
R0976 Intron enhancer ACTGCACCTTTCTTTGTTCCATCTCTCCAC
CTCTGCTGTG
PTB, ETR-3
R0977 Intron silencer ACTGCACCTTTCTTTGTTCCATCTCTCCAC
CTCTGCTGTG
PTB, ETR-3
R0978 Intron enhancer TCGCGGGTCGGTGTGTCCTGTGCCTTTCCC
TGCTT
ETR-3*, PurH*
R0979 Intron silencer CGCTTTCCTTTCATTCTTTCACTTCTCTGC
TGCTTTT
PTB*
R0980 Intron silencer GCTTATTAACTGCAATGTACTTTTTATTGT
TTTTCATTCCAGTTAAGG
U2 snRNP
R0981 Intron silencer ATTTCTGCTTGACTCTTCCAAATCTTCCTT
CTCTTACCCTTGCATTTTCTCTCTGT
PTB
R0982 Intron enhancer TCTTGGGTATAGCACCCAAAGTAAAGTAGT
GACTCGTTAGCTGCTTTTCTCTCTCTCTCT
CTCTCTCTCTCTCTCTCTCTGTCTCTACAT
ATATATATTTTTGTTTGTTTGTTTGTTTGT
TGTTTGTTTGTTTGTTTTTTCCCTCATCTC
TTCCTAG
CUG-BP*
R0983 Intron silencer CTCTTTCTCTTTAACCCTGTGCCTGCCTGT
CTTGCTGTCTGTCTTCCCCCACCTAACTCC
TTCTCCTAACGGTTTTCCTCAAG
PTB, CUG-BP
R0984 Intron silencer GGGCCCTGTCTTCGCACCTCAGCCTCTCCT
TCTCTCTGCTTCTCTCTCGCTGGCCCTT
PTB/nPTB
R0985 Intron enhancer TGAGGCTGGGGGCTGCTCTCTGCATGTGCT
TCCT
PTB/nPTB, KSRP, FBP,hnRNP H, hnRNP F
R0986 Intron silencer TGAGGCTGGGGGCTGCTCTCTGCATGTGCT
TCCT
PTB/nPTB, KSRP, FBP,hnRNP H, hnRNP F
R0987 Intron enhancer CTGN
R0988 Intron silencer AATGCTGCTACAGCTGCTTCCTAACTTTGC
CTCTTTCTTC
PTB
R0989 Intron silencer ATCTGCCCCCACTCTGCTTCAGAAACTGCT
GCCCACTAACATTGCTCCCTGCCTGCCGCG
TG
R0990 Intron enhancer CTTTCATTTTTGTCTTTTTTT
R0991 Intron enhancer CCATGGAAAAATGCCCACAAC
R0992 Intron enhancer TGTGGGTTGATTTTTTCCATGCGTTTGATT
GCGTGCATGTGTAGGAGGTGAAGCCGGTGT
R0993 Intron enhancer CAAACAAATTCAAAGAGAACGGACTCTGTG
GGCTGATTTTTCCATGTGTTCAATCGC
R0994 Intron silencer CAAACAAATTCAAAGAGAACGGACTCTGTG
GGCTGATTTTTCCATGTGTTCAATCGC
R0995 Intron silencer CTCATTGTGATCTCCTCCCTCCCACAGCTC
TTTAGGTGTA
PTB
R0996 Intron silencer TGGTGGGACCATAGGCAGCAC
R0997 Intron enhancer TCTTAAAGGTTCTCTGCCCTGCATGGGAAG
AAACATTGCTGAGAACCACTGTGCATGAAC
CCCCTCACTTGTGAGAGTTCACTGAATGAC
ATTACGGCAATGCAGTAGTGTGTAGATAC
R0998 Intron silencer TGTTTCTCTTTCTCTCCTTT PTB
R0999 Intron silencer CCTTTTCCTTCTTCTTATT PTB
R1000 Intron silencer GCAATTCTCTTTTCTGTCT PTB
R1001 Intron enhancer ACAAATCCA PTB
R1002 Intron silencer CCGGAGTGCTCGAGAAACCAGCAACGGAGC
GGCGAATCGACAAAGGGGAGGAAGTGGGAG
AAACAACTGTGCAGCGAGATGCGAAGATGG
CGCCGGAGGAAACGGCCACACCTAAAACCG
TTGGCACATCCTGCTATCATTGCGGAACAG
CTATTGGCTGTAATTGCGCCACAGCCTCGG
CTCCCTCCTCCTCCTTATGTGGGGAGTGGT
TTGTATCCTTCCCT
hnRNP H, SF2/ASF
R1003 Intron enhancer TCATCATCATTTCAT Nova-1
R1004 Intron enhancer TAAGGAGTCTGTAAGTAATGGTTTCTGGAA
AACCTGTACCTTTAGAGTAGGCTAGTAGAA
ACTAAACTTAGTGCATGACAAAGTTCGATC
AGTCCCATAAATGTGCATG
hnRNP A1
R1005 Intron enhancer AGCTAGATTAGACTTCTAGAGTTT hnRNP A1
R1006 Intron silencer CCTGCTCTGCTGTGCTACCTCCTCCTGGCT
TTAAGCTGGGGCCGCCTCCCCAAAATAAGT
AGGTGAATGAGTGGTTA
R1007 Intron silencer CTGGATTATTAACTGAATGCCTCACTCAGA
GAATGAA
R1008 Intron silencer GCGTGGAGGAATATGACGAGGACGATGAGT
ACGAGCCAGAGGACGGCGA
SR proteins
R1009 Intron enhancer AGTACTAAGCGGTGATGTTTCTGATCAG
R1010 Intron enhancer GTTTAAGGGATGGTTGGTTGGTGGGG
R1011 Intron silencer ATGTACCATGTACC
R1012 Intron enhancer AGTGCTGTGT
R1013 Intron enhancer ATCCATCCCTCTATCTATCCCAGTTCAACC
TGTCCAAAAGTGTTTTTGAAGAACCGCTTA
AGCATAAGCAAAAAAA
R1014 Intron silencer GCCTCACGACCCAGCTGGGCCTTTGTCACA
TTGGGGGAGCCTGGTTTTTTCCTCTCATTC
TCTTACTGTCTATACTTTAGTTCTTTGAAT
CTGGAGGAGTGGAACAGGTCCACTCTTTGG
AAACTTGAACCTGGCTTTCTAGT
R1015 Intron silencer GCTTTAGCGCCGTCATTTTCAACCGTTTAT
AATCTTCTTCTGTGTCTGCATATTTTCTCT
GTGCACATTATTCATCAG
PTB, CUG-BP
R1016 Intron enhancer GATTTGCATGTCGTACTGCATGTGTCCACT
GTGCACACAATC
R1017 Intron enhancer GCCAATCAGGTACAGTATCATCCTCTCATC
TACACCATACTTTCACAGCGGTTG
Nova-1
R1018 Intron silencer TTTTTTTT Sxl
R1019 Intron silencer CCTTGCCATTAACCGCGCTCTTCCTCTCCT
CCCATCCACCACATGGTTATAG
R1020 Intron silencer TAGTGAATAGAGTTAGGCAGGGA hnRNP A1
R1021 Intron silencer TCACACGT
R1022 Intron enhancer CCCATGCG
R1023 Intron enhancer GGCGGCCAGAGGGTGTGCGGAGCTGGTGGG
GAGGAGCTTGGAGAGAAGGGACAAAGCTGG
GGGCTGAGGGAGAACCCCCA
SF2/ASF, hnRNP H
R1024 Intron silencer TTTTTTTT Sxl, U2 snRNP
R1025 Intron silencer ATCACGCTGCCTGCTGCACCCCACCCCCTT
CCCCCTTCCTTCCCCCCACCCCCGTACTCC
ACTGCCAACTCCC
R1026 Intron silencer CTGGATGCCGCCTCTGCTGCTGCGCACATT
TCATTTATATTCTGTCCTTTCCCCTTTTTC
TCCTCTTCTTTACCTCCTCCCCTTTGGTTG
PTB
R1027 Intron enhancer CCCCTCTCTCTATCGCTGTCTCTTGAGCCA
CGC
ASF/SF2, SC35, PTB, hnRNP K
R1028 Intron enhancer GCTGGGGCTGGGCAGAGCGCGCAGGGTTGA
GGGGAGCAGGGTCCTTCACTGGGGTGAA
TLS
R1029 Intron silencer AACCCCACCCCCTCACCCCGTTCGCGCCAC
CCCACTGTCTCACCTCACTGTGCCCTCACG
CTCCATCCTGCCACACGCCCCTGCAG
PTB, Sam68, FBP
R1030 Intron enhancer TTTTCTCTTGTCTTTTTTT
R1031 Intron enhancer AAAGTAATACCTCCTATTTATTTCCCTGGA
AACTACAGCAGTTACAAAGAGCACAATAAC
ACTATTT
R1032 Intron silencer CAGTTGTACATGGTTCCTATCTCACAGGAT
TATTTTGGAAGAGATGATATCCAGCAATTA
TATACATAATTAACTTTACTCCACTATGTA
GAATTTAAGTGAAATTCATTTATATTAATG
GAGTGAACAATCCATATCTAAAGGAAAAGA
TCAAAGAGAAGAATCTGACATTTGGGTAGC
TAAGTTATGTACTTCTATGTGCTGGTGATG
TAAGTGGTGACAGGTGCTTAACTTCTTTTT
TTCAGCTGTGCCATTGATGTTTTTAGTGGC
ATGCGATCAGTCTATTTCATATAGCATAAT
ACATCTTCTGTTTTTGTTAACCTCTTATCT
TAAAACAAAAGCGAAGTTTTCTTAACTTCA
CATTTAGGAAAATTGTTGCACAGATTTCAT
GTTCTGAATGGGAAACAACGGTTAGGTTAA
TGAAAACAGTCCTTGCATGTTAGTCTTTTT
CAGTGTTAATGTTCCAGACTTCAAATGCAA
CGTATTCATCATGTTTATATGATATGTAGT
GCTTCCACTGTATATT
R1033 Intron enhancer YCAY Nova-1
R1034 Intron enhancer CAACCAACC

Department of Biological Science and Technology, Institute of Bioinformatics, National Chiao Tung University, Taiwan
Contact with Dr. Hsien-Da Huang