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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaccatgtgcattcagaaatctaaaagtttttctgagcatatttcatcttgattaattattaatatctggctttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGAGGAAGACAG

Basic information

species Zea mays
transcript GRMZM2G158021_T01
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G158021_T01 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os07g43470.1 (Oryza sativa), 3'ss of exon 4
gtgaccatgtgcattcagaaatctaaaagtttttctgagcatatttcatcttgattaattattaatatctggctttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGAGGAAGACAG
|| |  || | |  ||| |||   | |    |  |||||  |||    ||||| || || | ||   |     ||   ||||||||| ||||||| ||||| ||||| || |||||||||||||||||||| |||||||| |||
gtaattatttactctcataaagtaagatacatgcctgagtttatccgctcttggttgataactagcct-----ttctttttcagCTTTTAGATCTTCCAGGAATCATTGAGGGTGCTAAAGATGGAAAGGGTAGAGGAAGGCAG

upper sequence: GRMZM2G158021_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA06G15180.1 (Glycine max), 3'ss of exon 4
-gtgaccat-gtgca-ttcagaaatctaa-----aagtttttctgagcatatttcatcttgattaattattaatatctggct-ttcattt--------cagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGAGGAAGACAG
  |   ||| || || || |  ||| | |     | || | | | ||  ||||| |   || | |||| ||||    | | | |||| ||        ||| |  | |||||||| || || ||||| |||||||| ||||||||||| |||||||| |||
attagtcattgtacaatttattaatatgattgtgatgtatatttaagt-tattttaatatgttcaatttttaactggtagttcttcaattttctgtgacagTTGTTGGATCTCCCCGGAATTATCGAGGGTGCTAAGGATGGAAAGGGTAGAGGAAGGCAG

upper sequence: GRMZM2G158021_T01 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA04G39690.1 (Glycine max), 3'ss of exon 4
------------------gtgaccatgtgcat-tcagaaatctaaaagtttttctgagcatatttcatcttgattaattattaatatctggctttcattt-cagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGAGGAAGACAG
                   |    || ||  | | |   || |  ||||| |  | |  || || ||| |   |||| |  || |   |   ||| || | ||| |  | |||||||| || || ||||| |||||||| ||||||||||| |||||||| |||
tattagtcactgtacaatttattaatatgattgtgatgcatatttaagttatgttaa-tattttccattt---ttaactggtagttgttcaattttatgtgcagTTGTTGGATCTCCCTGGAATTATCGAGGGTGCTAAGGATGGAAAGGGTAGAGGAAGGCAG

upper sequence: GRMZM2G158021_T01 (Zea mays), 3'ss of exon 4
lower sequence: AT4G39520.1 (Arabidopsis thaliana), 3'ss of exon 4
---------gtgaccatgtgcattcagaaatcta---aaagtttttctgagcatatttcatcttgattaattattaatatctggcttt---cattt-cagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGAGGAAGACAG
         ||    |  |  | |||| || | |     | || |||   | | | |    ||       || || || ||    | |     ||| ||| |  ||||||| || || || || || ||||||||||||||||| || ||||||||||||
gacttcttggtacttagtttaagtcaggaaacgacctgtaattattcattggacactgatgctaatactcttttttatgtccccttctatgtgtttgcagTTATTAGATCTTCCTGGTATTATTGAGGGTGCTAAAGATGGAAAAGGTAGAGGAAGACAG

upper sequence: GRMZM2G158021_T01 (Zea mays), 3'ss of exon 4
lower sequence: EFJ34569 (Selaginella moellendorffii), 3'ss of exon 3
gtgaccatgtgcattcagaaatctaaaagtttttctgagcatatttcatcttgattaattattaatatctggctttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGAGGAAGACAG
             |   || |  |      ||  |  | | ||   | |  ||  ||| |  |||| |     |||| || |||||||| |||||||| || |||||||||||||| ||||||||||| ||  ||||  | |||
------------gtgtggatagtttgtttcttggccaaacttaaaacgttgtgtgtaact-ctaatct-----tttctttccagCTTCTCGATCTCCCTGGTATCATCGAAGGTGCAAAAGATGGAAAAGGACGAGGTCGCCAG

upper sequence: GRMZM2G158021_T01 (Zea mays), 3'ss of exon 4
lower sequence: EFJ09453 (Selaginella moellendorffii), 3'ss of exon 4
gtgaccatgtgcattcagaaatctaaaagtttttctgagcatatttcatcttgattaattattaatatctggctttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGAGGAAGACAG
             |   || |  |      |||  ||  || | || |    | |||  | | | | |     |||| || |||||||| |||||||| || |||||||||||||| ||||||||||| ||  ||||  | |||
------------gtgtggatagtttg----tttcttggccaaacttaaaaacg-ttatgtgtaactctaatcttttctttccagCTTCTTGATCTCCCTGGTATCATCGAAGGTGCAAAAGATGGAAAAGGACGAGGTCGCCAG

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|32836870|gb|CD976548.1|CD976548
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|211270941|gb|FL142975.1|FL142975
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGG
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGG
EST: gi|32837261|gb|CD976939.1|CD976939
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|211268500|gb|FL142959.1|FL142959
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGG
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGG
EST: gi|71769273|gb|DR967210.1|DR967210
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|32919863|gb|CF024675.1|CF024675
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|32839263|gb|CD978944.1|CD978944
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|32848352|gb|CD988033.1|CD988033
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|67034867|gb|CO463400.1|CO463400
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|60353675|gb|DN220648.1|DN220648
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|74240038|gb|DT647952.1|DT647952
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|26559128|gb|CA831363.1|CA831363
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|71418217|gb|DR804368.1|DR804368
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|76937221|gb|DV175090.1|DV175090
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|71436936|gb|DR817986.1|DR817986
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|30306602|gb|CD001275.1|CD001275
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|32836351|gb|CD976029.1|CD976029
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|67042509|gb|CO468764.1|CO468764
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|33094247|gb|CF054241.1|CF054241
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|22520897|gb|BU079708.1|BU079708
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|22542275|gb|BU092713.1|BU092713
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|87155566|gb|DY400355.1|DY400355
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|166618906|gb|EG219567.1|EG219567
EST:     GGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: GGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|71312952|gb|DR792998.1|DR792998
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|74233974|gb|DT641888.1|DT641888
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|60343127|gb|DN210100.1|DN210100
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|116817757|gb|EC860667.1|EC860667
EST:     CTTTAACATGTATTCCTGAAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTAGCTAAAGATG
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGT-GCTAAAGATG
EST: gi|6527040|gb|AW216258.1|AW216258
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|211268507|gb|FL142966.1|FL142966
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCMGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
EST: gi|32836350|gb|CD976028.1|CD976028
EST:     CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAG                         CTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA
genomic: CTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGA

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: 288

GTTGCTTCCTACGAGTTTACAACTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGAGGAAGACAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 274

GTTGCTTCCTACGAGTTTACAACTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGAGGAAGACAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 272

GTTGCTTCCTACGAGTTTACAACTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGAGGAAGACAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 262

GTTGCTTCCTACGAGTTTACAACTTTAACATGTATTCCTGGAGTTATCATGTATAAGGGTGCTAAAATCCAGgtgaccatgt ... ttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGAGGAAGACAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttctgagcatatttcatcttgattaattattaatatctggctttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGAGGAAGACAG
                              tattaat  putative branch site (score: 262)
                                           ctttcatttc  putative PPT
           atatttcatcttgatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaccatgtgcattcagaaatctaaaagtttttctgagcatatttcatcttgattaattattaatatctggctttcatttcagCTTCTAGATCTCCCAGGGATCATCGAAGGTGCTAAAGATGGAAAGGGCAGAGGAAGACAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAAGA