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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactagccttttcttctgcttcgaccctttcaatgcgctgcaggctatccatgtaagttttactttcaattcttatttattttggttttgatgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT

Basic information

species Oryza sativa
transcript LOC_Os11g31640.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM5G891276_T01 (Zea mays), 3'ss of exon 6
gtactagccttttcttctgcttcgaccctttcaatgcgctgcaggc-tatccatgtaagttttactttcaattcttatttattttggttttgatgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
||||||  |   | |    |||  || ||||     |  | ||     |    ||| | | ||   || |||  ||||||  |||  || ||||||  || ||||||||| |||||||| |||||| | ||||| || |||||||| ||||||||||||||||||||||||||||||||||| || || ||||||||||  ||
gtactaaaccagttt----ctttaacactttttgcccttttcatttgcagttgtgttaatgtttgattaaataattattt--tttccttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCATCTGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGATAATGACTCTCATGT

upper sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G030862_T01 (Zea mays), 3'ss of exon 8
-gtactagccttttcttctgcttcgaccctttcaatgcgctgcag----gctat-ccatgtaag---ttttactttcaattcttatttattttggttttgatgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
    ||  ||||||| |  ||  | |    |        ||  |     | | | |    |||    ||||  |||   || ||  ||  || || | || || |||||||||||||||||||| || |||||||||||||||||||| ||||| ||||||||||||||||||||||| ||||||||||| || ||||| |||||||| ||
gtccctccccttttcgttcgcgactatatatgtgtccaactagaataatgttgtactgaataatccttttttttttgtttttttgcttgcttgggatgtgttg-cttgcagGTGCCCAGAAACTGGCGCGCATCCGTGAGAACAGCAACTTCTTCAGGTCAGAGCTCAAGAAGATGGGCTTTGAGGTTCTTGGTGACAACGACTCTCCTGT

upper sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G067257_T01 (Zea mays), 3'ss of exon 10
--gtactagccttttcttctgcttcgaccctttcaatgcgctgcaggc-tatccatgtaagttttactttcaattcttatttattttggttttgatgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
  ||||||  |   | |    |||  || ||||     |  | ||     | |  ||| | | ||   || |||  || ||| ||||  || ||||||  || ||||||||| |||||||| |||||||| ||||| || |||||||| ||||||||||||||||||||||||||||||||||| || |||||||||||||| ||
aggtactaaaccagttt----ctttaacactttttgcccttttcatttgcagctgtgttaatgttcgattaaataattcttt-ttttccttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT

upper sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G157249_T01 (Zea mays), 3'ss of exon 2
gtactagccttttcttctgcttcgaccctttcaatgcgctgcaggc-tatccatgtaagttttactttcaattcttatttattttggttttgatgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTT-GAGGTTCTCGGAGACAATGACTCTCCAGT
||||||  ||  | |    |||  || ||||     |  | ||     | |  ||| | | ||   || |||  || ||| ||||  || ||||||  || ||||||||| |||||||| |||||||| ||||| || |||||||| ||||||||||||||||||||||||||| |||||||| || |||||||||||||| | 
gtactaaactagttt----ctttaacacttttttcccttttcatttgcagctgtgttaatgttcgattaaataattcttt-ttttccttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTTGAGGTTCTTGGTGACAATGACTCTCCTG-

upper sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G137556_T01 (Zea mays), 3'ss of exon 5
--gtactagccttttcttctgcttcgaccctttcaatgcgctgcaggc-tatccatgtaagttttactttcaattcttatttattttggttttgatgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
  ||||||  |   | |    |||  || ||||     |  | ||    ||    ||| | | ||   || |||  || ||| ||||  || ||||||  || ||||||||| |||||||| | |||||| ||||| || |||||||| |||||||||||||||||||||| |||||||||||| || |||||||||||||| ||
aggtactaaaccagttt----ctttaacactttttgcccttttcatttgtagttgtgttaatgttcgattaaataattcttt-ttttccttgtgatgtactgaagGTGCCCAAAAACTTGCTCACATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGTTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT

upper sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G152888_T01 (Zea mays), 3'ss of exon 9
gtactagccttttcttctgcttcgaccctttcaatgcgctgcaggc-tatccatgtaagttttactttcaattcttatttattttggttttgatgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
||||||  |    |  || |||  || ||||     |  | ||     | |  ||  | | ||   || |||  || |||  |||  || ||||||  || ||||||||| |||||||| |||||||| ||||| || |||||||||||||||||||||||||||||||||||||||||||| || |||||||||||||| ||
gtactaaac----cagcttctttaacactttttgcccttttcatttgcagctgtgctaatgttcgattaaataattcttt--tttccttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCATCCGCGAGAATAGTAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT

upper sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G357734_T03 (Zea mays), 3'ss of exon 14
--gtactagccttttcttctgcttcgaccctttcaatgcgctgcaggc-tatccatgtaagttttactttcaattcttatttattttggttttgatgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
  ||||||  |   | |    |||  || ||||     |  | ||     | | |||| | | ||   || |||  || ||| ||||  || ||||||  || ||||||||| |||||||| |||||||| ||||| || |||||||| ||||||||||||||||||||||||||||||||||| || |||||||||||||| ||
aggtactaaaccagttt----ctttaacactttttgcccttttcatttgcagctatgttaatgttcgattaaataattcttt-ttttccttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT

upper sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G142030_T01 (Zea mays), 3'ss of exon 9
gtactagccttttcttctgcttcgaccctttcaatgcgctgcaggctatccatgtaagttttactttcaattcttatttattttggttttgatgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
||||||  |     || |    |     | |   ||| ||    | | | ||  |  |||    ||  | |   | ||| ||||  || |||| | ||| ||||||||| |||||||||||||||||||||||| | |||||||| ||||| || |||||||||||||||||||||||||| || |||||||| ||||| ||
gtactaaaccagctttttttaacacttttatttgtgcccttttcgtt-tgcagctgtgttagtgttcaattaaatgtttttttttcttgtgatatattgaagGTGCCCAAAAACTTGCACGCATCCGTGAGAACGGTAATTTCTTCAGGTCCGAACTCAAGAAGATGGGTTTTGAGGTTCTTGGCGACAATGATTCTCCTGT

upper sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G370377_T01 (Zea mays), 3'ss of exon 11
---------------------------------------------------------------gtactagccttttcttctgcttcgaccctttcaatgcgctgcaggctatccatgtaagttttactttcaattcttatttattttggttttgatgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT------------------------------------
                                                                 | ||    ||| |||   |  ||     | || | ||   |     | |  |    | ||   || |||  || |||  |||  || ||||||  || ||||||||| |||||||| ||||||||      |    ||||||| ||||||||||||||||||||||||||||||||||| || |||||||||||||| ||                                    
gtactaaaccagtttctttaacactttttgcccttttcatttgcagctgtgttaatgttcgattaaataattcttttttcc-ttgtgatgtactaaaggtgcccaaaaacttgctcgcggatgttcgattaaataattcttt--tttccttgtgatgtactgaaggtgcccaaaaacttgctcgcatccg-----gctaagATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGACAATGACTCTCCTGTCATGCCCATAATGCTCTACAATCCGGCTAAGATTCC

upper sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G055854_T01 (Zea mays), 3'ss of exon 7
---------------------------------------------------------------gtactagccttttcttctgcttcgaccctttcaatgcgctgcaggctatccatgtaagttttactttcaattcttatttattttggttttgatgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
                                                                 | ||    ||| |||   |  ||     | || | ||   |     | |  |    | ||   || |||  || |||  |||  || ||||||  || ||||||||| |||||||| |||||||| ||||| || |||||||| ||||||||||||||||||||||||||||||||||| || |||||||||||||| ||
gtactaaaccagtttctttaacactttttgcccttttcatttgcagctgtgttaatgttcgattaaataattcttttttcc-ttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCGGATGTTCGATTAAATAATTCTTT--TTTCCTTGTGATGTACTGAAGGTGCCCAAAAACTTGCTCGCATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT

upper sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GLYMA02G07250.1 (Glycine max), 3'ss of exon 9
---------------gtactagccttttcttctgcttcgaccctttcaatg-cgctgcaggc-tatccatgtaagttttactttcaattcttatttattttggttttga--------tgtct-tgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
               || ||   |||| |||    || |     ||  |||    |  | |   ||| ||  || |  || |        || ||||   ||  ||  |        | ||| |  ||||||||||||||||||||  || || ||||| ||||| || ||||||||||| ||  |||||||||| ||||||||||| || || ||||| ||||||||
gtttggctggcactagttctgctctttgctttgcatttgtattgtttgatgattttttatgtgcatcaatccaaataatattcgtctactttgtttaccgtgcattgaagtaagttttttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAGAATAGCAACTTTTTTAGGTCAGAACTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT

upper sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 9
---------gtactagccttttcttctgcttcgaccct---ttcaatg-cgctgcaggc-tatccatgtaagttttactttcaattcttatttattttggttttga------tgtct---tgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
         | |||||   |    | ||||| |    |   ||  |||    |  | |   ||| ||  || |  || |        || ||||  |||  ||  |      ||| |   |  ||||||||||||||||||||  || || || || ||||| || || ||||||||  |  |||||||||| ||||||||||| || || ||||| ||||||||
gtttggctggcactagttctgctctttgctttgcatttgtatttgatggttttttacgtgcatcaatccaaataatattcatctactttgtttaccttgcattgaagtaagttgtttctatatagGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT

upper sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: AT5G23670.1 (Arabidopsis thaliana), 3'ss of exon 9
gtactagccttttcttct------------gcttcgaccctttcaatgcgctgcaggctatccatgtaagttttactttcaattcttatttattttggtttt----gatgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
||||| |  |||| ||||              || | | | ||     | |||    | ||| |   | ||  |   |   |  || |    |     | ||     ||      |||| || || || || ||| | || |||||||||||||| || ||  || | |||||  |||||||||| |||||||| || ||||||||||| || |||||
gtactcgattttttttctcaccgtgtcattaattggcctcatttgggtcactgagcacaatctaatcaggtcatgactcataacctaaaaactcccattcttctcaaatactgaacagGGGCACAAAAGCTAGCAAGAATACGTGAGAACAGCAACTTTTTCCGGGCTGAGCTGCAGAAGATGGGATTTGAGGTACTTGGAGACAATGATTCCCCAGT

upper sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: Vv14s0068g01300.t01 (Vitis vinifera), 3'ss of exon 9
-------gtactagccttttcttctgcttcgaccctttcaatgcgctgcaggctatccatgtaagttttact-----ttcaattcttatttattttggt--tttgatgtct-tgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
         |  |  ||| | |  ||||| |          |   ||  |  || |   | | ||  |  |      || |||| || || ||||| ||  | |  ||||  || ||| ||||| ||||||||||  || |||||||| ||||| || || |||||||| ||  |||  ||||||||||||||||| || || ||||||||||||||
gtaggataaataaatcttctgtcatgcttggttttaacttctattcttgaatctttaggtttcagactctccattgctttaattgtttttgattttagtgctcttgtgtccatgtagGAGCCCAAAAACTTGCACAAATACGTGAGAATAGCAACTTTTTCAGGTCAGAACTGCAGAGCATGGGTTTTGAGGTTCTTGGGGATAATGACTCTCCAGT

upper sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
lower sequence: Vv17s0000g00500.t01 (Vitis vinifera), 3'ss of exon 10
gtactagccttttcttctgcttcgaccctttcaatgcgc--tgcagg-ctatccatgtaagtttta----ctttcaattcttatttattttggttttgatgtcttgc-agGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
    |  || | |  | |  |||  |  ||    ||     |||||  ||    |  ||  | ||       ||   || || |||  | || ||||| |    |   ||| || |||||| | ||||| || ||||||||||| || || || || ||||| ||  |||||||||| ||||||||||| ||||| ||||| ||||| ||
--gttcaccctcttctatatttcaccatttatggtggctcatgcagctctgcaaacctagatcttgagcttatttgcttattgtttgatctgcttttgtttaaatattagGGGCTCAGAAATTGGCACGAATACGTGAGAACAGTAACTTTTTCAGATCAGAACTGCAGAAGATGGGCTTTGAGGTTCTTGGAGATAATGATTCTCCTGT

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|29628852|gb|CB633863.1|CB633863
EST:     AGTTATTTCAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAG                         GTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAG
genomic: AGTTATTTCAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAGgtactagcct ... tgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAG
EST: gi|29671691|gb|CB667966.1|CB667966
EST:     AGTTATTTCAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAG                         GTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAG
genomic: AGTTATTTCAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAGgtactagcct ... tgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAG
EST: gi|29675002|gb|CB671277.1|CB671277
EST:     AGTTATTTCAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAG                         GTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAG
genomic: AGTTATTTCAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAGgtactagcct ... tgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAG
EST: gi|29615692|gb|CB620704.1|CB620704
EST:     AGTTATTTCAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAG                         GTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAG
genomic: AGTTATTTCAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAGgtactagcct ... tgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAG
EST: gi|29672757|gb|CB669032.1|CB669032
EST:     AGTTATTTCAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAG                         GTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAG
genomic: AGTTATTTCAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAGgtactagcct ... tgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAG
EST: gi|29626773|gb|CB631784.1|CB631784
EST:     AGTTATTTCAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAG                         GTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAG
genomic: AGTTATTTCAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAGgtactagcct ... tgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAG
EST: gi|29615730|gb|CB620742.1|CB620742
EST:     AGTTATTTCAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAG                         GTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAG
genomic: AGTTATTTCAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAGgtactagcct ... tgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAG
EST: gi|86494972|gb|CI137605.1|CI137605
EST:     CAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAG                         GTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAG
genomic: CAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAGgtactagcct ... tgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAG

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: 61 (upstream exon), 72 (downstream exon)
Score: 18

TGCCCAGCGCATATTTATGCTACCTCCATGTCACCACCAGCAGTACAACAAGTTATTTCAGCCATTAAAGTGATCCTTGGAGAGGATGGCTCCAACAGAGgtactagcct ... tgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atccatgtaagttttactttcaattcttatttattttggttttgatgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
                                       ttttgat  putative branch site (score: 18)
       taagttttactttcaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactagccttttcttctgcttcgaccctttcaatgcgctgcaggctatccatgtaagttttactttcaattcttatttattttggttttgatgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG