Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgtgttgtgacttaattttagctttccttaatattgcatctgacataatcctagctactaatatgtcttctgctggcaatgctctgatcatttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGATGGCCTATGGAAG

Basic information

species Zea mays
transcript GRMZM2G180990_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G180990_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g21180.2 (Oryza sativa), 3'ss of exon 6
atgtgttgtgacttaattttagctttccttaatattgcatctgacataatcctagctactaatatgtctt--------ctgctggcaatgct-ctgatcatttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGATGGCCTATGGAAG
        | ||  ||||| ||||||||||||||||     | ||||  || | | |  ||| |  ||||         || || ||||| |  |  | | |||||||| | ||| ||||||||||||||||| |||||||||||||||||||||||||||||||| ||||||
-------ctaacaaaatttaagctttccttaatattatcgttcacat--tctttgtttgtaaaacctcttgtgctgccttgttgacaatggtgttcctgaattttgtagTAAGACTATCAACAAAGGAATTGGAGTTGACAATATGCACTATCTAAATGATGGCCTGTGGAAG

upper sequence: GRMZM2G180990_T01 (Zea mays), 3'ss of exon 6
lower sequence: EFJ21050 (Selaginella moellendorffii), 3'ss of exon 7
atgtgttgtgacttaattttagctttccttaatattgcatctgacataatcctagctactaatatgtcttctgctggcaatgctc--tgatca--tttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGATGGCCTATGGAAG
                                                     ||| ||   | ||  |          | |||   || | |   | | | |||| ||  ||||||||||| ||||| || ||||||||||||||||| || ||||| || ||||||
--------------------------------------------------gtgagccaccggtttgcttggaaacaatcaagctaagtgtttaaactctcgcagAAAGAATATCAACAAAGGGATTGGAGTGGACAATATGCACTATCTCAACGATGGACTCTGGAAG
















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|71432616|gb|DR813666.1|DR813666
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|40336035|gb|CK370105.1|CK370105
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|32867978|gb|CF007660.1|CF007660
EST:     GGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: GGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|32930812|gb|CF035624.1|CF035624
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|33094727|gb|CF054721.1|CF054721
EST:     AAACAACACACCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|32831739|gb|CD971417.1|CD971417
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|113701024|gb|EE678528.1|EE678528
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|31361525|gb|CD445882.1|CD445882
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|33103884|gb|CF063844.1|CF063844
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|32830385|gb|CD970063.1|CD970063
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGGCCATCAACAAAGGAATTGGTGTTGACAATATGCACTATC
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATC
EST: gi|19437099|gb|BM953509.1|BM953509
EST:     AAGCAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|67011554|gb|CO440303.1|CO440303
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|78104076|gb|DV522494.1|DV522494
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|60337104|gb|DN204077.1|DN204077
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|60344361|gb|DN211334.1|DN211334
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|31352656|gb|CD437013.1|CD437013
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|32837141|gb|CD976819.1|CD976819
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|87152577|gb|DY397366.1|DY397366
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|211484308|gb|FL024487.1|FL024487
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|31611965|gb|CD568587.1|CD568587
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTTGACAATATGCACTATCTAAATG
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTG-TTGACAATATGCACTATCTAAATG
EST: gi|78109763|gb|DV528179.1|DV528179
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|31351483|gb|CD435840.1|CD435840
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|6601643|gb|AW256039.1|AW256039
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|32867979|gb|CF007661.1|CF007661
EST:     GGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: GGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|33095243|gb|CF055237.1|CF055237
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTCGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|37390121|gb|CF632287.1|CF632287
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|37378150|gb|CF625740.1|CF625740
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGCCCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|24934238|gb|CA452456.1|CA452456
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|211487182|gb|FL024494.1|FL024494
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|33102131|gb|CF062091.1|CF062091
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|33093064|gb|CF053058.1|CF053058
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|32931994|gb|CF036806.1|CF036806
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|32933442|gb|CF038254.1|CF038254
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|31351985|gb|CD436342.1|CD436342
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|22490969|gb|BU050892.1|BU050892
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|76285927|gb|DV025495.1|DV025495
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|37378790|gb|CF626105.1|CF626105
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|19436981|gb|BM953391.1|BM953391
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|40334722|gb|CK368792.1|CK368792
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|33102197|gb|CF062157.1|CF062157
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|78074026|gb|DV502460.1|DV502460
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|60341910|gb|DN208883.1|DN208883
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|71432615|gb|DR813665.1|DR813665
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
EST: gi|31362272|gb|CD446629.1|CD446629
EST:     AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACAT                         AAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA
genomic: AAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGA

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), 48 (downstream exon)
Score: 176

GCTATAATGGCTGAAGGAAAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGATGGCCTATGGAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 250

GCTATAATGGCTGAAGGAAAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGATGGCCTATGGAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 156

GCTATAATGGCTGAAGGAAAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGATGGCCTATGGAAG


Block sizes: 49 (upstream exon), 47 (downstream exon)
Score: 165

GCTATAATGGCTGAAGGAAAACAACACGCCCTGGCAATTGGATATACAAAGATGTCAGCAAAAGACATgtaagtttca ... atttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGATGGCCTATGGAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ataatcctagctactaatatgtcttctgctggcaatgctctgatcatttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGATGGCCTATGGAAG
                                           tcattttt  CT-rich tract
           tactaatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgtgttgtgacttaattttagctttccttaatattgcatctgacataatcctagctactaatatgtcttctgctggcaatgctctgatcatttttgtagAAGGACCATCAACAAAGGAATTGGTGTTGACAATATGCACTATCTAAATGATGGCCTATGGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
-tgtgttg
- - - - - - - - - - - - - - - - - - gcatctg
- - - - - - - - - - - - - - - - - - - - - - - - - - -agctact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcaatgc