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 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtgatggtgcccttgacttgtctttttttcgttatgagttaatgcaactatatggactgattcaccgtggtaatatttggctttttctggtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTGCAGCCCTCCCGTTGCACAGAGGAGTTCCGCTTGAGGAAAGCCAAGAACG

Basic information

species Zea mays
transcript GRMZM2G149257_T01
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G149257_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os10g32820.1 (Oryza sativa), 3'ss of exon 1
-agtgatggtgcccttgacttgtctttttttcgt-tatgagttaatgcaactatatggactgattcaccgtggtaatatttggctttttctggtgcctt--tagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTGCAGCCCTCCCGTTGCACAGAGGAGTTCCGCTTGAGGAAAGCCAAGAACG
 |    |  ||  |  | | |||   | | | || |  | | | ||  || | |    |     |  | ||  || |  |||   |||  |  |  |||  ||||||     |||||| ||||||||| | ||||||||||||||||||||||||||||| ||| | ||||| |||||||||||| |||||||   ||||||||
catgtgtaatgttca-gtcatgtggatatgtagtcttcgggattatttaatttttgaaatcatgtatctgttttactgattg---tttgttaatctcttggtagGTTGGGAACCGCATTATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTGCAGCCATCCAGGTGCACTGAGGAGTTCCGCCTGAGGAAGATCAAGAACG

upper sequence: GRMZM2G149257_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g04750.1 (Oryza sativa), 3'ss of exon 1
----agtgatggtgcccttgacttgtctttttttcgttatgagttaatgca-actatatggactgattcaccgtggtaatatttggctttttctggtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTGCAGCCCTCCCGTTGCACAGAGGAGTTCCGCTTGAGGAAAGCCAAGAACG
        ||||  |     |  | |    | ||    || |  ||  ||   |||  ||   ||   || | |   | |    | || | | |  || | | ||||   |  |||||||||||||||| | ||||||||||||||||||||||| ||||| ||| | ||||| |||||| ||||| ||||||||  ||||||||
attttagaatggaacatcaaa--tattgagtattgaacatcaaatagggctcgctacttgatgtgg--caacttcacattgaa-gactctgttttctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTCCAGCCATCCAGGTGCACCGAGGAGCTCCGCCTGAGGAAAATCAAGAACG

upper sequence: GRMZM2G149257_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv08s0007g07010.t01 (Vitis vinifera), 3'ss of exon 1
agtgatggtgcccttgacttgtctttttttcgttatgagttaatgcaactatatggactgattcaccgtggtaatatttggctttttctggtgcc-----tttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTGCAGCCCTCCCGTTGCACAGAGGAGTTCCGCTTGAGGAAAGCCAAGAACG
  | |||   ||  |    | | |||  ||| ||      |  | ||| |  ||  |     | ||| |  |  | |||||||||      ||       |  ||||   |  | | || |||| |||||| |||||||| ||||||||||||||||| || ||  | ||||| ||||| |||||  |||||||    ||||| |
cattatgaatccaatcttgtatttttggttcattgctgtctgcttcaattcaattta-----tgaccatatttctgtttggctttggtgcatgttcataatccagGTGGGTAACAGGATTATCAAGAAGCGGATCCATGTGCGTGTGGAGCATGTGCAACCTTCAAGGTGCACTGAGGAATTCCGTCTGAGGAAGTTGAAGAATG

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|71328196|gb|DR800736.1|DR800736
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|211274633|gb|FL463118.1|FL463118
EST:     AAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: AAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|31558795|gb|CD528007.1|CD528007
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|4609534|gb|AI600373.1|AI600373
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|211528138|gb|FL314775.1|FL314775
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|29945225|gb|CB815533.1|CB815533
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|148940118|gb|EC884867.2|EC884867
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|74240299|gb|DT648213.1|DT648213
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|30088300|gb|CB886505.1|CB886505
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|31558794|gb|CD528006.1|CD528006
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|211394347|gb|FL351050.1|FL351050
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|29945227|gb|CB815534.1|CB815534
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|14997055|gb|BI319143.1|BI319143
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|76280874|gb|DV020442.1|DV020442
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|31998269|gb|CD662003.1|CD662003
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|86469366|gb|DY235736.1|DY235736
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|60358805|gb|DN225778.1|DN225778
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|14243556|gb|BG841283.2|BG841283
EST:     GCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|74240298|gb|DT648212.1|DT648212
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|83278522|gb|DV942530.1|DV942530
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|60352897|gb|DN219870.1|DN219870
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|32940189|gb|CF045008.1|CF045008
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|94479827|gb|EB708785.1|EB708785
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|30088301|gb|CB886506.1|CB886506
EST:     AACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: AACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|148940117|gb|EC884866.2|EC884866
EST:     TGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGGGTATCCATGTCCGTGTGGAGCATGTG
genomic: TGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|149064159|gb|EE286454.2|EE286454
EST:     GGGTTTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|31910970|gb|CD651690.1|CD651690
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|211445085|gb|FL365438.1|FL365438
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|13316146|gb|BG410593.1|BG410593
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|211517205|gb|FL332922.1|FL332922
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|37395883|gb|CF635227.1|CF635227
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
EST: gi|211148897|gb|FL287422.1|FL287422
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAG                         GTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTG

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: 185

CGCCGTGCACAAGGGCATGCCGCACAAGTTCTACCACGGCCGCACCGGTCGCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTGCAGCCCTCCCGTTGCACAGAGGAGTTCCGCTTGAGGAAAGCCAAGAACG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 123

CGCCGTGCACAAGGGCATGCCGCACAAGTTCTACCACGGCCGCACCGGTCGCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTGCAGCCCTCCCGTTGCACAGAGGAGTTCCGCTTGAGGAAAGCCAAGAACG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 133

CGCCGTGCACAAGGGCATGCCGCACAAGTTCTACCACGGCCGCACCGGTCGCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTGCAGCCCTCCCGTTGCACAGAGGAGTTCCGCTTGAGGAAAGCCAAGAACG


Block sizes: 49 (upstream exon), 48 (downstream exon)
Score: 95

CGCCGTGCACAAGGGCATGCCGCACAAGTTCTACCACGGCCGCACCGGTCGCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTTGAGATCAACAAGCAGgtataacgcc ... gtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTGCAGCCCTCCCGTTGCACAGAGGAGTTCCGCTTGAGGAAAGCCAAGAACG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

caactatatggactgattcaccgtggtaatatttggctttttctggtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTGCAGCCCTCCCGTTGCACAGAGGAGTTCCGCTTGAGGAAAGCCAAGAACG
          gactgat  putative branch site (score: 95)
                                              tgccttt  putative PPT
                          taatattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agtgatggtgcccttgacttgtctttttttcgttatgagttaatgcaactatatggactgattcaccgtggtaatatttggctttttctggtgcctttagGTTAATGGCCGCATCATCAGGAAGCGTATCCATGTCCGTGTGGAGCATGTGCAGCCCTCCCGTTGCACAGAGGAGTTCCGCTTGAGGAAAGCCAAGAACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - -tggtgcc
- - - - - - - - - - - - - - - - - - - - -aatgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgattca