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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatgcttgttgaattctttagtttcttcccagcttctgccagatagttttggtggctaatattttcatgatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTGCTATGTCGCCGATATG

Basic information

species Zea mays
transcript GRMZM2G044027_T01
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G044027_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os03g16980.4 (Oryza sativa), 3'ss of exon 9
gtaatgcttgttgaattc--tttagtttcttcccagcttctg-ccagatagttttggtggctaatatt-ttcatgatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTGCTATGTCGCCGATATG---------------------------------
|||||||| | |||| |   || |   |  || ||| || || |||| | ||  ||| |  || | |  | ||| || ||  |||||||| ||||| ||||| ||||||||||||||||| |||||||||||||||||||| || || |||                                 
gtaatgctcgctgaacttctttcaacattctctcaggttgtgtccagttggtcctggagcttattttcatacataattttacagTGGCGAGCCCCTGACTGTTCAGAAGCCAGGAACACAAACTAGGAGCTTCTGCTATGTTGCTGACATGGTTTGTCACCCCTTTTGAAATGTCATTAATTAA

upper sequence: GRMZM2G044027_T02 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os03g16980.3 (Oryza sativa), 3'ss of exon 8
gtaatgcttgttgaattc--tttagtttcttcccagcttctg-ccagatagttttggtggctaatatttt-catgatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTGCTATGTCGCCGATATG
|||||||| | |||| |   || |   |  || ||| || || |||| | ||  ||| |  || | |  | ||| || ||  |||||||| ||||| ||||| ||||||||||||||||| |||||||||||||||||||| || || |||
gtaatgctcgctgaacttctttcaacattctctcaggttgtgtccagttggtcctggagcttattttcatacataattttacagTGGCGAGCCCCTGACTGTTCAGAAGCCAGGAACACAAACTAGGAGCTTCTGCTATGTTGCTGACATG
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|149089880|gb|EE179165.2|EE179165
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAAGC-AGGAACACAGACTAGGAGCTTCT
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAA-GCCAGGAACACAGACTAGGAGCTTCT
EST: gi|148944203|gb|EC889294.2|EC889294
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGACCCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|32841175|gb|CD980856.1|CD980856
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|32165002|gb|CD670320.1|CD670320
EST:     CGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCT
genomic: CGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCC-TTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCT
EST: gi|14206834|gb|BG840512.1|BG840512
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|32909997|gb|CF014809.1|CF014809
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|71761214|gb|DR959151.1|DR959151
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|6194647|gb|AW146751.1|AW146751
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTG
EST: gi|32841101|gb|CD980782.1|CD980782
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|7216734|gb|AW562856.1|AW562856
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|37397262|gb|CF635926.1|CF635926
EST:     AACATTGACGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|211032180|gb|FL277400.1|FL277400
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|148970766|gb|EE021510.2|EE021510
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAAGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|32850262|gb|CD989943.1|CD989943
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGGCTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|67016223|gb|CO444972.1|CO444972
EST:     ACATTGACGATGGGCCGTGT-GAGANCAACTTCATTGCTCAGGCTGTGCT                         TGGCGAACCCCT-ACTGTCCA
genomic: ACATTGACGATGG-CCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCA
EST: gi|32850632|gb|CD990313.1|CD990313
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|14202329|gb|BG836006.1|BG836006
EST:     AACATTGACGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAAMACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|149097828|gb|EE183755.2|EE183755
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|149107238|gb|EE189121.2|EE189121
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|16919271|gb|BM074112.1|BM074112
EST:     ATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: ATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|32850554|gb|CD990235.1|CD990235
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|13149594|gb|BG319916.1|BG319916
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|37390281|gb|CF632369.1|CF632369
EST:     AACATTGACGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGTACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|149066781|gb|EE286923.2|EE286923
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|60359268|gb|DN226241.1|DN226241
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|148945877|gb|EC891169.2|EC891169
EST:     TGACGATGGCCGTGTTGTAAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: TGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|149107237|gb|EE189120.2|EE189120
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGGACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|149081449|gb|EE170575.2|EE170575
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCAAAAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|488218|gb|T18799.1|T18799
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCT
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCT
EST: gi|40337515|gb|CK371585.1|CK371585
EST:     AACATTGACGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|32866186|gb|CF005868.1|CF005868
EST:     ATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: ATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|37400341|gb|CF637522.1|CF637522
EST:     AACATTGACGATGGTCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|148944202|gb|EC889293.2|EC889293
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|148928436|gb|EE285202.2|EE285202
EST:     GATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: GATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|148951041|gb|EC896695.2|EC896695
EST:     ACATTGACGATGGCCGTGTTGTTAGCAACTTCATTTGCTCAGGCTGTGCG                         TGGCGAACCCCTTTACTGTCCAGAAGCCAGGAACACAGACTAAGAGCTTCT
genomic: ACATTGACGATGGCCGTGTTGTTAGCAACTTCATT-GCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTT-ACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCT
EST: gi|149066780|gb|EE286922.2|EE286922
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGA-CACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|32850616|gb|CD990297.1|CD990297
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|148960534|gb|EE011139.2|EE011139
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAG
EST: gi|32831494|gb|CD971172.1|CD971172
EST:     TCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: TCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|149089846|gb|EE179125.2|EE179125
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTG
EST: gi|32840626|gb|CD980307.1|CD980307
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|149097834|gb|EE183762.2|EE183762
EST:     ACATTGACGATGGGCGTGTTGGGTAGCA-CTTCATTGCTCAGGCTGTGCG                         TGGCGGACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTCCTG
genomic: ACATTGACGATGGCCGTGTTGT-TAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|32849033|gb|CD988714.1|CD988714
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|149097829|gb|EE183756.2|EE183756
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAA
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAA
EST: gi|14245099|gb|BG873681.1|BG873681
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|32916547|gb|CF021359.1|CF021359
EST:     AACATTGACGAGGGCCGTGTTGTTAGCAACTTCACTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|18165420|gb|BM335259.1|BM335259
EST:     GTGTTGTTAGCAACTTCATTGCTCAGNCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: GTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|67013235|gb|CO441984.1|CO441984
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|37373887|gb|CF623268.1|CF623268
EST:     GATGGTCGTGTNGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: GATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|148945878|gb|EC891170.2|EC891170
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|14244528|gb|BG840193.2|BG840193
EST:     CAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: CAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|213192508|gb|FM182601.1|FM182601
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|7242239|gb|AW574412.1|AW574412
EST:     AACATTGACGATGGCCGNGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|40334263|gb|CK368333.1|CK368333
EST:     GTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: GTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|211032182|gb|FL277402.1|FL277402
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|32165003|gb|CD670321.1|CD670321
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCT
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTT-ACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCT
EST: gi|6601652|gb|AW256048.1|AW256048
EST:     CTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: CTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
EST: gi|83279397|gb|DV943405.1|DV943405
EST:     AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCG                         TGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG
genomic: AACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 4 RNA-Seq libraries.


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 666

AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTGCTATGTCGCCGATATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1262

AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTGCTATGTCGCCGATATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 1702

AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTGCTATGTCGCCGATATG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 2228

AAATCCGAATTGCCAGGATTTTCAACACCTATGGACCAAGGATGAACATTGACGATGGCCGTGTTGTTAGCAACTTCATTGCTCAGGCTGTGCGgtaatgcttg ... gatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTGCTATGTCGCCGATATG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttcccagcttctgccagatagttttggtggctaatattttcatgatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTGCTATGTCGCCGATATG
                              ggctaat  putative branch site (score: 2228)
                                 taatattttcatgat  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatgcttgttgaattctttagtttcttcccagcttctgccagatagttttggtggctaatattttcatgatcttgtagTGGCGAACCCCTTACTGTCCAGAAGCCAGGAACACAGACTAGGAGCTTCTGCTATGTCGCCGATATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT