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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attttagaatggaacatcaaatattgagtattgaacatcaaatagggctcgctacttgatgtggcaacttcacattgaagactctgttttctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTCCAGCCATCCAGGTGCACCGAGGAGCTCCGCCTGAGGAAAATCAAGAACG

Basic information

species Oryza sativa
transcript LOC_Os03g04750.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os03g04750.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G026216_T01 (Zea mays), 3'ss of exon 1
attttagaatgga-acatcaaatattgagtattga--acatcaaatagggctcgctacttgatgtggcaa--cttcacattg-aagactctgttttctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTCCAGCCATCCAGGTGCACCGAGGAGCTCCGCCTGAGGAAAATCAAGAACG
    ||   |||| | || |     || ||| ||   | |||||  |        || |  |||||  |   ||| | |||   | |   |||| ||| |  ||||||   |   ||||||||||||||| | ||||||||||| ||||||||||| ||||||||| | ||||| || ||| |||||||||||||  | ||||| |
----tatgctggacatattatgctctgtgtagtggtgatatcaatgataatggcttaatctatgtgtaagttctttagattctgataacttgttatcttt--tcagGTGAATGGTCGCATCATCAGGAAGCGTATCCATGTCCGCGTGGAGCATGTGCAGCCATCCCGCTGCACAGAAGAGTTCCGCCTGAGGAAGGTGAAGAATG

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

upper sequence: LOC_Os03g04750.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G089421_T01 (Zea mays), 3'ss of exon 1
attttagaatggaacat-caaatattgagtattgaacatcaaatagggctcgctac-ttgatgtggcaacttcacattgaagactctgttttctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTCCAGCCATCCAGGTGCACCGAGGAGCTCCGCCTGAGGAAAATCAAGAACG
     |       |||| |  || ||  ||        | || |    ||   ||   |||  || ||  || ||| |   |||    | |  ||||   ||||   |  |||||||||||||||| ||||||||||||| ||||||||||| ||||| ||| | ||||| |||||| ||||| ||||||||  |||||| |
gaaacaacccttgacatgcgtattttttgtggcatgagttaagtgcatctaattagactgaactgccatgttaacact--tgacctattctggtgtctctagGTTAATGGCCGCATCATCAGGAAGCGGATCCATGTCCGCGTGGAGCATGTGCAGCCCTCCCGTTGCACGGAGGAGTTCCGCTTGAGGAAAGCCAAGAATG

upper sequence: LOC_Os03g04750.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA06G22900.1 (Glycine max), 3'ss of exon 2
attttagaatggaacatcaaatattgagtattgaacatcaaatagggctcgctacttgatgtggcaacttcacattgaagactctgttttctgtca---tcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTCCAGCCATCCAGGTGCACCGAGGAGCTCCGCCTGAGGAAAATCAAGAACG
 |    |  ||  |  |  | | |  ||  ||  |  |    || | |||  |  ||   |       |    ||||||    |  |||  |||     ||||||||| ||| | ||||| ||||||||||| || || ||||||||||||||   |||||| |||||||| |||||| ||||||| |||||||||||||| |
ctgcccgtgtgttaattttagtttctagggttttatgt---gtatgcctcattgatttggggatttggtgtttattgaaattaccttttgatgtttcattcagGTCGGCAACAGAATCATAAGGAAGAGGATTCACGTGCGTGTGGAGCATGTTATGCCATCGAGGTGCACTGAGGAGTTCCGCCTTAGGAAAATCAAGAATG

upper sequence: LOC_Os03g04750.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA03G36560.1 (Glycine max), 3'ss of exon 1
--attttagaatggaacatcaaatattgagtattgaacatcaaatagggctcgctacttgatgtggcaacttcacattgaagactctgttttctgtcat-cagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTCCAGCCATCCAGGTGCACCGAGGAGCTCCGCCTGAGGAAAATCAAGAACG
   |    |  ||  |  |  | | |  ||  ||  |  |    || | |||| |  ||   |       || |     |  ||| | |  | | |||| |||||||| ||| | ||||| ||||||||||| || || ||||||||||||||   |||||| |||||||| |||||| ||||||| ||||| |||||||| |
ttctgcccgtgtgttaattttagtttctagggttttatgt---gtatgcctcgttgattttgggaatggttttattgaaattactttttgatgtttcattcagGTCGGCAACAGAATCATAAGGAAGAGGATTCACGTGCGTGTGGAGCATGTTATGCCATCAAGGTGCACTGAGGAGTTCCGCCTTAGGAAGATCAAGAATG

upper sequence: LOC_Os03g04750.1 (Oryza sativa), 3'ss of exon 1
lower sequence: AT1G09690.1 (Arabidopsis thaliana), 3'ss of exon 1
-attttaga--atggaacatcaaatattgagtattgaacatcaaatagggctcgctacttgatgtggcaacttcacattgaagactctgttttctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTCCAGCCATCCAGGTGCACCGAGGAGCTCCGCCTGAGGAAAATCAAGAACG
 | | | ||  |||||  |||  ||    | ||    | |||   | |      |||||| || | |    ||   | |||    | |      |||  |||| | || ||| | ||||| ||||||||||| ||||| |||||||||||||| |||| ||| || ||  | |||||| ||   |||||||| |  ||||| |
taatatggattatggattatcctatgac-aataacacaaatctttttgctagtactactt-atattgggtattatgactgacacatgttgggggtgtt-tcagATTGGCAACAGGATCATAAGGAAGAGGATTCATGTGCGTGTGGAGCATGTGCAGCAATCAAGATGTGCTGAGGAGTTCAAGCTGAGGAAGAAGAAGAATG

upper sequence: LOC_Os03g04750.1 (Oryza sativa), 3'ss of exon 1
lower sequence: AT1G57860.1 (Arabidopsis thaliana), 3'ss of exon 1
----attttagaatgg----aacatcaaatattgagtattgaacatcaaatagggctcgctacttgatgtggcaacttcacattgaagactctgttttctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTCCAGCCATCCAGGTGCACCGAGGAGCTCCGCCTGAGGAAAATCAAGAACG
     ||||    | |    | | ||   | |    | |||    |   ||  |  |      |||  | |  || ||    |    |  |  |||||        || | || ||| | ||||| ||||||||||| ||||| |||||||||||||| || |  || |||||  | |||||| |    || || || |   ||||||
atatgttttgatgttgtgaaagcttctcttttcatttcttgtgtttatgattagtgtaatctgttggagagctaagttggtgtgttgggttgggtttt--------agATTGGGAACAGAATCATAAGGAAGAGGATACATGTGCGTGTGGAGCATGTGCAACAGTCAAGGTGTGCTGAGGAGTTTAAACTCAGAAAGAAACAGAACG

upper sequence: LOC_Os03g04750.1 (Oryza sativa), 3'ss of exon 1
lower sequence: AT1G09590.1 (Arabidopsis thaliana), 3'ss of exon 1
attttagaatggaacatcaaatattgagtattgaacatcaaatagggctcg--ctacttgatgtggcaacttcacattgaagactctgtttt--ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTCCAGCCATCCAGGTGCACCGAGGAGCTCCGCCTGAGGAAAATCAAGAACG
  | |  ||||    || |     |||  |    |||   | |   ||| |  ||||||    |||  | |     |   | |   || |     |||  |||| | || ||| | ||||| ||||||||||| ||||| |||||||||||||| ||||  || || ||  |||||||| ||   |||||||| |  || ||||
--tgtgtaatgctg-attagcctatgaccagaacacaaacatttttgctagtactacttatattgggtattatgactgacatatgatggtggggttgtt-tcagATTGGGAACAGGATCATAAGGAAGAGGATTCATGTTCGTGTGGAGCATGTGCAGCAGTCAAGATGTGCCGAGGAGTTCAAGCTGAGGAAGAAGAAAAACG

upper sequence: LOC_Os03g04750.1 (Oryza sativa), 3'ss of exon 1
lower sequence: AT1G57660.1 (Arabidopsis thaliana), 3'ss of exon 1
attttagaatggaacatcaa--atattgagtattgaa---catcaaatagggctcgctacttgatgtggcaacttcacattgaagactctgttttctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTCCAGCCATCCAGGTGCACCGAGGAGCTCCGCCTGAGGAAAATCAAGAACG
   ||  |||  | |  | |  ||  | | | |||||   | ||   |   | |   |   |    |||     | |   ||  |  |  ||||  | | || || | || ||| | ||||| ||||||||||| ||||| |||||||||||||| || |  || |||||  | |||||| |    || || || |   ||||||
---ttgcaatcaatctactatgattcttatttttgaaagccttctcttttagtttattgtatttcttggtgggctaattatgt-gtttgggtttggttttat-agATTGGGAACAGAATCATAAGGAAGAGGATACATGTGCGTGTGGAGCATGTGCAACAGTCAAGGTGTGCTGAGGAGTTTAAACTCAGAAAGAAGCAGAACG

upper sequence: LOC_Os03g04750.1 (Oryza sativa), 3'ss of exon 1
lower sequence: Vv08s0007g07010.t01 (Vitis vinifera), 3'ss of exon 1
-attttagaatggaacatcaaatattgagtattgaacatcaaatagggctcgctacttga---tgtggcaacttcacattgaagactctgttttctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTCCAGCCATCCAGGTGCACCGAGGAGCTCCGCCTGAGGAAAATCAAGAACG
 ||| |  |    | | |  | | |||  |  |     ||   |     ||  |   |||   | |  |   ||  | |||  |    ||||     ||  ||||| |||||| | || |||| |||| |||||||||| |||||||||||||| || || || |||||||| |||||  |||| ||||||||  | ||||| |
cattatgaatccaatcttgtatttttggttcattgctgtctgcttcaattcaatttatgaccatatttctgtttggctttggtg--catgttcataatc--cagGTGGGTAACAGGATTATCAAGAAGCGGATCCATGTGCGTGTGGAGCATGTGCAACCTTCAAGGTGCACTGAGGAATTCCGTCTGAGGAAGTTGAAGAATG

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|38469154|gb|CF953285.1|CF953285
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|88430255|gb|CI567274.1|CI567274
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|5003717|gb|AU068866.1|AU068866
EST:     CGTCTGGAACGTCACCAAGCGCGCCATCGG-GTTCGAGATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: CGTCTGGAACGTCACCAAGCGCGCCATCGGCGT-CGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|5003718|gb|AU068867.1|AU068867
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|88434940|gb|CI549137.1|CI549137
EST:     ATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: ATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|88969830|gb|CI383332.1|CI383332
EST:     GATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: GATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|88319594|gb|CI518438.1|CI518438
EST:     CACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTNTGGAGCATGTC
genomic: CACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|88285759|gb|CI510019.1|CI510019
EST:     AGATCAACAACCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATNTC
genomic: AGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|11565108|gb|AU165744.1|AU165744
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|313084035|gb|HO213818.1|HO213818
EST:     GCGCGCCATCGGCGTCGAGATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: GCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|86870181|gb|CI318095.1|CI318095
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|88962657|gb|CI023757.1|CI023757
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCTACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|11025647|gb|AU162248.1|AU162248
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|86423440|gb|CI062201.1|CI062201
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|88287836|gb|CI510116.1|CI510116
EST:     GATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCNTGTGGAGCATGTC
genomic: GATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|55411319|gb|CV723695.1|CV723695
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|15847738|gb|BI796014.1|BI796014
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|88978721|gb|CI385062.1|CI385062
EST:     GTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTTTGGAGCATGTC
genomic: GTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|313084034|gb|HO213817.1|HO213817
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|33800650|gb|CF326195.1|CF326195
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|8857686|gb|AU095004.1|AU095004
EST:     CAAGCGCGCCATCGGCNTCGAAATCAACAAGCNG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: CAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
EST: gi|58592240|gb|CF990548.1|CF990548
EST:     GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGAGCAGCAAGCAG                         GTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC
genomic: GCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTC

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 1 RNA-Seqlibrary.


Block sizes: 75 (upstream exon), 75 (downstream exon)
Score: 82

CGCCGTGCACAAGGGCATGCCGCACAAGTTCTACCACGGCCGCACCGGCCGCGTCTGGAACGTCACCAAGCGCGCCATCGGCGTCGAGATCAACAAGCAGgtataatccg ... ctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTCCAGCCATCCAGGTGCACCGAGGAGCTCCGCCTGAGGAAAATCAAGAACG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggctcgctacttgatgtggcaacttcacattgaagactctgttttctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTCCAGCCATCCAGGTGCACCGAGGAGCTCCGCCTGAGGAAAATCAAGAACG
        acttgat  putative branch site (score: 82)
                                    ctctgttttctgtc  putative PPT
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attttagaatggaacatcaaatattgagtattgaacatcaaatagggctcgctacttgatgtggcaacttcacattgaagactctgttttctgtcatcagGTCGGTAACCGCATCATCAGGAAGAGGATCCATGTCCGTGTGGAGCATGTCCAGCCATCCAGGTGCACCGAGGAGCTCCGCCTGAGGAAAATCAAGAACG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - catcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - cttgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttcaca