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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtacatgatctggcaattttttttatctatgggatctgaactaatgcacatattcaataactgcaagttttcagacatcaattatcttgcaagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGGCAATTGCTAAGGCTCTTGCTGCTGCTGGTGCTGAGATTCTTGTTGGTAC

Basic information

species Zea mays
transcript GRMZM2G079256_T01
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G079256_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os09g10600.1 (Oryza sativa), 3'ss of exon 2
gtacatgatctggcaattttttttatctatgggatctgaactaat--gcacatattcaataactgcaagttttcagacatcaattatcttgcaagtttt--cagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGGCAATTGCTAAGGCTCTTGCTGCTGCTGGTGCTGAGATTCTTGTTGGTAC
    | |  ||   || || |  |  ||   |||  || |  |    |||||     ||  |     | |  | |    || |   | |||||  ||||  ||||||||||||||||||| ||||||||||||||||||||||| ||||| |||||||| || || ||||||||||| |||||||| |||||||||||||||||
----aagtgctactaacttgtcattactgaaggaaatgtataatctagcacaacccaaaggatatttaatcatgaagtctctaacttgttgcatttttttacagGTAAAAGAGCATTTATTGCTGGAGTTGCTGATGATAATGGCTATGGCTGGGCAATAGCAAAAGCTCTTGCTGCAGCTGGTGCCGAGATTCTTGTTGGTAC

upper sequence: GRMZM2G079256_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA12G03060.1 (Glycine max), 3'ss of exon 3
--gtacatgatctggcaattttttttatctatgggatctgaactaatgca-catattcaataactgcaagttttcagacatcaattatcttgcaagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGGCAATTGCTAAGGCTCTTGCTGCTGCTGGTGCTGAGATTCTTGTTGGTAC
   |   | || ||     || | || |  || | || || | |  |    ||||    || |   ||| | ||     |   |  ||     |  | |  ||||||||| || ||||| ||||| ||||||||||| ||||| ||||| ||||||||||| || ||||||||||| || || |||||||| |||||||| ||
aattttgtaatttgattggttatctt-ttcatag-atatggatttttctgtcatagagtatgaaaacaaatattgctttactgaaaatagca-atatatgtagGTAAAAGGGCTTTTATTGCTGGTGTTGCTGATGACAATGGATATGGATGGGCAATTGCAAAAGCTCTTGCTGCAGCAGGAGCTGAGATCCTTGTTGGCAC

upper sequence: GRMZM2G079256_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA11G10770.1 (Glycine max), 3'ss of exon 2
------gtacatgatctggcaattttttt-tatctatgggatctgaactaatgcacatattcaataactgcaagttttcagacatcaattatcttgcaagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGGCAATTGCTAAGGCTCTTGCTGCTGCTGGTGCTGAGATTCTTGTTGGTAC
      |||  |    |||  || ||||  ||  |||||  | ||   | ||  |       || || |     ||| | || |  |   ||        | |  ||||||||| || ||||| ||||| ||||||||||| ||||| ||||| ||||||||||| ||  |||||||||| || || ||||| ||||||||||| ||
aattttgtaatttgattggttatcttttcatagatatggattttgctatgatagagtatgagaacaaatatcgctttactgaaaatagcaat-------atatgtagGTAAAAGGGCTTTTATTGCTGGTGTTGCTGATGACAATGGATATGGATGGGCAATTGCAAAATCTCTTGCTGCAGCCGGAGCTGAAATTCTTGTTGGCAC

upper sequence: GRMZM2G079256_T01 (Zea mays), 3'ss of exon 2
lower sequence: AT2G05990.2 (Arabidopsis thaliana), 3'ss of exon 2
gtacatgatctggcaattttttttatctatgggatctgaactaatgcacatattcaataactgcaagttttcagacatcaattatcttgcaagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGGCAATTGCTAAGGCTCTTGCTGCTGCTGGTGCTGAGATTCTTGTTGGTAC
                      ||   |     ||||    |      || |    |  |||    | | || || |  ||  |  |   ||   | |||| |||||||| || || |||||  | |||||||||||||| ||||||||||| || || ||  |||||||||||||||| ||||| ||  | ||||| ||
---------------------gttggttggcatatctttctttgaattcaga---gaagacttggtgctatctga-actaagcaagtgtaaatggtacagGGAAAAGAGCTTTCATTGCTGGTATAGCTGATGATAATGGCTATGGTTGGGCCATAGCAAAATCTCTTGCTGCTGCTGGAGCTGAAATATTGGTTGGGAC

upper sequence: GRMZM2G079256_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv08s0007g06390.t01 (Vitis vinifera), 3'ss of exon 2
gtacatgatctggcaattttttttatctatgggatctgaactaatgcacatattcaataactgcaagttttcagacatcaattatcttgcaagtttt-----cagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGGCAATTGCTAAGGCTCTTGCTGCTGCTGGTGCTGAGATTCTTGTTGGTAC
    |  | |     | ||  ||   | |   | |    |||    |||| | |  || |   ||  | ||  |||   | | |  | |  |||  |     ||||||| || |||||||| || || || |||||||||||||| |||||||||||||| || ||  | ||||||||||| || ||||| |||||| |||| ||
---aagaaccaaattaattgcttctaccacttgtttgatacttggtcacacaat--atgaacccatctattttgactaaactaacatagtgagtaatactggcagGTAAGAGGGCATTTATTGCGGGTGTAGCTGATGATAATGGATATGGTTGGGCAATAGCAAAATCGCTTGCTGCTGCAGGAGCTGAAATTCTTATTGGCAC

upper sequence: GRMZM2G079256_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv06s0004g01310.t01 (Vitis vinifera), 3'ss of exon 2
gtacatgatctggcaattttttttatctatgggatctgaactaatgc----acatattcaataactgcaagttttcagacatcaattatcttgcaagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGGCAATTGCTAAGGCTCTTGCTGCTGCTGGTGCTGAGATTCTTGTTGGTAC
||   |||| |   |||||    ||| | ||  | ||  | || ||     ||| |   |||||    |  | ||||   |  | |    |||| | | |  |||||| ||||| ||||| ||||| ||||||||||| ||||| |||||||||||||| || ||  ||||||| ||||| |||||||| ||||||||||| ||
gtttgtgatttca-aatttaagatatttgtg--accttgattattgataagacacaaaaaataagattacctcttcaactaaaactgggattgcta-tctgtagGTAAGAGAGCCTTTATTGCTGGTGTTGCTGATGACAATGGATATGGTTGGGCAATAGCCAAATCTCTTGCAGCTGCAGGTGCTGAAATTCTTGTTGGCAC

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|211312421|gb|FL116829.1|FL116829
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211312412|gb|FL116820.1|FL116820
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211310396|gb|FL116817.1|FL116817
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211312423|gb|FL116831.1|FL116831
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|32850415|gb|CD990096.1|CD990096
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211314449|gb|FL116843.1|FL116843
EST:     GAGGNCAATGTCGCAGAGAGGTGCCCAAGGANTTCCCATTGATCTCACAG                         GAAAAAGAGCATNTATAGCTGGAGCCTGCTGATGA
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGT-TGCTGATGA
EST: gi|32935344|gb|CF040156.1|CF040156
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|32865280|gb|CF004962.1|CF004962
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|6626474|gb|AW258006.1|AW258006
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGC
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGC
EST: gi|32863455|gb|CF003137.1|CF003137
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|21987661|gb|BQ779189.1|BQ779189
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|32907240|gb|CF012053.1|CF012053
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|78076466|gb|DV504900.1|DV504900
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211312417|gb|FL116825.1|FL116825
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211314440|gb|FL116834.1|FL116834
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211312420|gb|FL116828.1|FL116828
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|32908286|gb|CF013099.1|CF013099
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|67011703|gb|CO440452.1|CO440452
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|87156317|gb|DY401106.1|DY401106
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211314439|gb|FL116833.1|FL116833
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|32911684|gb|CF016496.1|CF016496
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|71332949|gb|DR803501.1|DR803501
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211314448|gb|FL116842.1|FL116842
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|32935208|gb|CF040020.1|CF040020
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211312419|gb|FL116827.1|FL116827
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211314447|gb|FL116841.1|FL116841
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGGTTATGGTTGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGG-TTATGGTTGG
EST: gi|211312418|gb|FL116826.1|FL116826
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|33094888|gb|CF054882.1|CF054882
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211314443|gb|FL116837.1|FL116837
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|22819573|gb|BU499663.1|BU499663
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211314444|gb|FL116838.1|FL116838
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|31356068|gb|CD440425.1|CD440425
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211312415|gb|FL116823.1|FL116823
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGNAGTTGCTGATGATAATGGTTATGGTTGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGG-AGTTGCTGATGATAATGGTTATGGTTGG
EST: gi|26559923|gb|CA832158.1|CA832158
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211310397|gb|FL116818.1|FL116818
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211314445|gb|FL116839.1|FL116839
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
EST: gi|211310393|gb|FL116814.1|FL116814
EST:     GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAG                         GTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG
genomic: GAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGG

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: 47 (upstream exon), 49 (downstream exon)
Score: 275

GCCACATCAGCAGGACCACTGGTTTCTTCGAATTGCAAGAGGGTTGTTGTGAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGGCAATTGCTAAGGCTCTTGCTGCTGCTGGTGCTGAGATTCTTGTTGGTAC


Block sizes: 47 (upstream exon), 49 (downstream exon)
Score: 205

GCCACATCAGCAGGACCACTGGTTTCTTCGAATTGCAAGAGGGTTGTTGTGAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGGCAATTGCTAAGGCTCTTGCTGCTGCTGGTGCTGAGATTCTTGTTGGTAC


Block sizes: 47 (upstream exon), 47 (downstream exon)
Score: 81

GCCACATCAGCAGGACCACTGGTTTCTTCGAATTGCAAGAGGGTTGTTGTGAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGGCAATTGCTAAGGCTCTTGCTGCTGCTGGTGCTGAGATTCTTGTTGGTAC


Block sizes: 48 (upstream exon), 49 (downstream exon)
Score: 141

GCCACATCAGCAGGACCACTGGTTTCTTCGAATTGCAAGAGGGTTGTTGTGAGGGCAATGTCGCAGAGAGGTGCCCAAGGACTTCCCATTGATCTCACAGgtaagctgaa ... aagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGGCAATTGCTAAGGCTCTTGCTGCTGCTGGTGCTGAGATTCTTGTTGGTAC




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcacatattcaataactgcaagttttcagacatcaattatcttgcaagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGGCAATTGCTAAGGCTCTTGCTGCTGCTGGTGCTGAGATTCTTGTTGGTAC
         caataac  putative branch site (score: 141)
                                                ttttc  putative PPT
     tattcaataa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtacatgatctggcaattttttttatctatgggatctgaactaatgcacatattcaataactgcaagttttcagacatcaattatcttgcaagttttcagGTAAAAGAGCATTTATAGCTGGAGTTGCTGATGATAATGGTTATGGTTGGGCAATTGCTAAGGCTCTTGCTGCTGCTGGTGCTGAGATTCTTGTTGGTAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT