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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtctttctttagcacaattgatgaaatgtttataactagtgaccttgctgacagaagtgcgtttagtaagtttgaactttgtatacttatacatcaacgatgtgcttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCGAAGAAGGTAGAGGGAAGCCCACCTGATGGGATGGAGCTTAAGAAATGGG

Basic information

species Oryza sativa
transcript LOC_Os01g43540.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g43540.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G105019_T01 (Zea mays), 3'ss of exon 9
gtatgtctttctttagcacaattgatgaaatgtttataactagtgaccttgctgacagaagtgcgtttagtaagtttgaactttgtatacttatacat-caacgatgtgcttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCGAAGAAGGTAGAGGGAAGCCCACCTGATGGGATGGAGCTTAAGAAATGGG
                               ||   | |    || ||  ||| | |   |    |  ||  |  | | | ||| | |   ||  ||   | |  ||  | | | ||||||| ||||| || || |||||||| || ||||||||||||||||||||  | ||||||||||| || ||||| |||||||| |||||||| ||||| ||||
-------------------------------gtacgtgatgtttggcccagctaatactgg-atttggagccaact-gtattttatgtctatactcacgtatccttgcccgtttctgcagGTGGAATCAAATGGCACTGTTCTCTCAACCAATTGGAAAGATGTTGGAGCAAAGAAGGTAGAAGGGAGCCCCCCTGATGGTATGGAGCTCAAGAAGTGGG

upper sequence: LOC_Os01g43540.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GRMZM2G149704_T02 (Zea mays), 3'ss of exon 9
gtatgtctttctttagcacaattgatgaaatgtttataactagtgaccttgctgacagaagtgcgtttagtaa-gtttgaactttgtatacttatacatcaacgatgtgcttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCGAAGAAGGTAGAGGGAAGCCCACCTGATGGGATGGAGCTTAAGAAATGGG
                               ||   | |    || ||  ||| | |     || ||| | |     |  | ||| | |   ||  ||   ||  |     |   |||||   |||||||| ||||| ||||| || |||||||||||||||||||| || |||| ||| || |  ||||| |||||||| |||||||| ||||| ||||
-------------------------------gtacgtgatcgttggcccagctaata---acgcatttggaaccaactatattttatgtctatactcacgtacccttgctgttcctgcagAGGGAATCTAATGGTACCGTTCTCTCAACCAATTGGAAAGATGTTGGATCAAAGACGGTGGAAGCGAGCCCTCCTGATGGTATGGAGCTCAAGAAGTGGG

upper sequence: LOC_Os01g43540.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GLYMA09G23980.1 (Glycine max), 3'ss of exon 9
---------------------------------gtatgtctttctt-tagcacaat-tgatgaaatgtttataactagtgaccttgctgacagaagt-gcgtttagtaagt-ttgaactttgtatacttatacatcaacgatgtgcttgttt-----gcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCGAAGAAGGTAGAGGGAAGCCCACCTGATGGGATGGAGCTTAAGAAATGGG
                                  |   ||  | || | |||   | | ||    |||| ||   || |||   |||   || |  | |  || | |   |  || | | | || | ||  || | | |  | | ||  |||       ||||||| ||||| || || |||||||| || || |||||||| || ||  | ||||||||||||||||| || |||||||| |||||| | ||||||||||
gtaagtcctggtcataatatattcaaatttttaattcctccctattgtggcatcttctaatatcttgttaatttatattgagaatgccagcaaattttgtcttcactgcatactgcaatgtataca-ttgcacctgatctcttttctattttcttgtatagGTTGAGTCTAATGGGACAGTTCTGTCTACAAACTGGAAAGAAGTGGGAACAAAGAAGGTAGAGGGAAGTCCTCCTGATGGCATGGAGTTGAAGAAATGGG

upper sequence: LOC_Os01g43540.1 (Oryza sativa), 3'ss of exon 9
lower sequence: GLYMA16G29450.2 (Glycine max), 3'ss of exon 9
----------------------------------------------------gtatgtctttctttagcacaat-tgatgaaatgtttataactagtgaccttgctgacagaagtgcgttt---agtaagtt----tgaactttgtatacttatacatcaacgatgtgcttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCGAAGAAGGTAGAGGGAAGCCCACCTGATGGGATGGAGCTTAAGAAATGGG
                                                      ||  |||  | | |||   | | ||    |||| ||   || |||   |||   || |  |    ||   || |   |    || || ||| |        | |      | |  |  | |  ||||||| ||||| || || || ||||| || || |||||||| || || || |||||||||||||||||  | |||||||| |||||| | ||||||||||
gtaagttttgcacttgtatccttaattccttgtcataatatatgccaatttttaattccttattgtggcatcttctcatttcttgttaatttatattgagaatgccagcaaattttatcttcacagcatactgcaatgtacattgcacctgatctcttttctattattttcttgtatagGTTGAGTCTAATGGGACAGTGCTGTCTACAAACTGGAAAGAAGTGGGATCAAAGAAGGTAGAGGGAAGTGCTCCTGATGGCATGGAGTTGAAGAAATGGG

upper sequence: LOC_Os01g43540.1 (Oryza sativa), 3'ss of exon 9
lower sequence: Vv16s0050g01510.t01 (Vitis vinifera), 3'ss of exon 9
gtatgtctttctttagcacaattg-atgaaatgt--ttataactagtgaccttgctgacagaagtgcgtttagtaagtttgaactttgtatacttatacatcaacgatgtgcttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCGAAGAAGGTAGAGGGAAGCCCACCTGATGGGATGGAGCTTAAGAAATGGG
||| | ||| |  || |  | ||  || |||| |  || ||| |    |    | | | | ||| |   |||| || ||        ||    || |   ||   |   |  || ||  ||||| || || || || || || |||||||| || ||||| || ||||| ||||||||||| ||||||||||| || ||||| |||||| | ||||||||||
gtaagactt-caataccggagttacataaaatatcattctaattgagtatgg-gattataaaagggaaattagcaaattaacggaaggtgacattgtttttcttggggctattttttaacagGTGGAGTCAAATGGGACAGTGCTGTCGACAAACTGGAAGGAAGTTGGATCGAAGAAGGTTGAGGGAAGCCCTCCCGATGGCATGGAGATGAAGAAATGGG

upper sequence: LOC_Os01g43540.1 (Oryza sativa), 3'ss of exon 9
lower sequence: Vv12s0035g01560.t01 (Vitis vinifera), 3'ss of exon 4
-gtatgtctttctttagcacaattgatgaaatgtttataactagtgaccttgctgacagaagtgcgtttagtaagtttgaactttgtatacttatacatcaacgatgtgcttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCGAAGAAGGTAGAGGGAAGCCCACCTGATGGGATGGAGCTTAAGAAATGGG--------------
  ||  |      | |    ||||||  |   | ||||||   |  |  | ||  |           ||| |   ||  ||  |   ||   | |   ||   |   |  || ||  |  || || |  ||| | || || |||| ||| || ||||| || ||| | ||||||||||| ||||||||||| |||||||| ||||||  || ||||||||              
gttacataggatatcattctaattgagtatgggattataaaagggaaattagcaaa-----------ttaatggattcaaaggtgacat---tgtttttcttggggctattttttaacttgtggagtaaaacagGACAGTGCTGTGGACAAACTGGAAGGAAGTTCGATCGAAGAAGGTTGAGGGAAGCCCTCCTGATGGCATGGAGAATAGGAAATGGGAGTACTGAGTTCTC

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|88906744|gb|CI375816.1|CI375816
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|218485287|gb|FG957632.1|FG957632
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88260774|gb|CI363067.1|CI363067
EST:     TACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|86523660|gb|CI163866.1|CI163866
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|25803427|gb|CA759388.1|CA759388
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAATGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|8857468|gb|AU094786.1|AU094786
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88274405|gb|CI394811.1|CI394811
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|29661449|gb|CB657724.1|CB657724
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|89177449|gb|CI390628.1|CI390628
EST:     ACGAGCAATGATGAAATC-TTG                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATTTTGGCTCG
genomic: ACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88980111|gb|CI026400.1|CI026400
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|13805768|gb|AU181196.1|AU181196
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|27577531|gb|CB000226.1|CB000226
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88261436|gb|CI365012.1|CI365012
EST:     TCTACACTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88458455|gb|CI549995.1|CI549995
EST:     CGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: CGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|25803426|gb|CA759387.1|CA759387
EST:     TTTACAGTGATGCTGATGAAGCCCTGCGCCGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88263282|gb|CI367056.1|CI367056
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAAC-GTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|29660562|gb|CB656837.1|CB656837
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|29625918|gb|CB630929.1|CB630929
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|86825833|gb|CI362321.1|CI362321
EST:     ATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAAATTGGAAAGATGTTGGCTC
genomic: ATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACC-AATTGGAAAGATGTTGGCTC
EST: gi|88202553|gb|CI200908.1|CI200908
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88436310|gb|CI519229.1|CI519229
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|29669130|gb|CB665405.1|CB665405
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|27578357|gb|CB001052.1|CB001052
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCT
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCT
EST: gi|55409147|gb|CV721523.1|CV721523
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|86598319|gb|CI354936.1|CI354936
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|11565208|gb|AU165844.1|AU165844
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88271546|gb|CI387599.1|CI387599
EST:     TCTACACTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|86866170|gb|CI336858.1|CI336858
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88449451|gb|CI534010.1|CI534010
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88997216|gb|CI389882.1|CI389882
EST:     TCTACACTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTCTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88444318|gb|CI555035.1|CI555035
EST:     CATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: CATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88843412|gb|CI372312.1|CI372312
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|23512886|gb|BU672887.1|BU672887
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCCATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88843613|gb|CI372513.1|CI372513
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88851043|gb|CI373801.1|CI373801
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAGGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|157651612|gb|EX451246.1|EX451246
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTAC
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTAC
EST: gi|29658977|gb|CB655252.1|CB655252
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|33686914|gb|CF315153.1|CF315153
EST:     AGTGATGCTGATGAAGACATGCGGCGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: AGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|86529243|gb|CI169449.1|CI169449
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88258462|gb|CI361048.1|CI361048
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88980948|gb|CI021075.1|CI021075
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|86843508|gb|CI339570.1|CI339570
EST:     TCTACAGTGATGCTGATGAAGACATGCGACGACCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
EST: gi|88271207|gb|CI387260.1|CI387260
EST:     TCTACAGTGATGCTGATGAAGACATGCGGCGAGCAATGATGAAATCTTTT                         GTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG
genomic: TCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCG

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: 160

GGAGGAGAAGCTTGAAGGCGATGCTGCATTGAACAAATTTTTCCGTGACATCTACAGTGATGCTGATGAAGACATGCGACGAGCAATGATGAAATCTTTTgtatgtcttt ... ttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCGAAGAAGGTAGAGGGAAGCCCACCTGATGGGATGGAGCTTAAGAAATGGG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttagtaagtttgaactttgtatacttatacatcaacgatgtgcttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCGAAGAAGGTAGAGGGAAGCCCACCTGATGGGATGGAGCTTAAGAAATGGG
                                            cttgttt  CT-rich tract
                 tttgtatacttata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtctttctttagcacaattgatgaaatgtttataactagtgaccttgctgacagaagtgcgtttagtaagtttgaactttgtatacttatacatcaacgatgtgcttgtttgcagGTTGAATCTAACGGTACTGTTCTGTCGACCAATTGGAAAGATGTTGGCTCGAAGAAGGTAGAGGGAAGCCCACCTGATGGGATGGAGCTTAAGAAATGGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA