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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattggttgaaataagttttctttgaaccggtatcttaagcttcattgttaacattgcaatatccttggttcttacaaagttgcttgtgctaaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAATCGCAGGACCGTGAACCGTCCTTACGGTGGTGTCCTGTCTGGTACTGCAG

Basic information

species Oryza sativa
transcript LOC_Os08g06040.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os08g06040.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA18G49340.1 (Glycine max), 3'ss of exon 2
---aattggttgaaataagttttctttgaaccggtatcttaagcttcattgttaacattgcaatatccttggttcttacaaagttgcttgtgctaaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAATCGCAGGACCGTGAACCGTCCTTACGGTGGTGTCCTGTCTGGTACTGCAG
   || || || || |||  | | | |  |     | |  |||      ||   | | ||| ||| |  |  |  ||      |  | ||   ||  ||||||||||||||| | ||||||||||| ||||||||||| |||||| | ||||| ||||||||||| |||||  | || || |||||  | || ||    || |
cataagtg-tttaattaacctgtttatccaaatacaccccaagtagtgatgagcaaaatgccataactatcatgattttctgat--cctgacttactctgcagATTCCACACTTAAGACCTGCTGAATACAAGAGGTCTAGATTGCCTAGGAACCGCAGGACCGTAAACCGAGCCTATGGAGGTGTTTTATCCGGGGGAGCTG

upper sequence: LOC_Os08g06040.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA09G37360.1 (Glycine max), 3'ss of exon 2
aattggttgaaataagttttctttgaaccggtatcttaagcttcattgttaacattg--caatatccttggttcttacaaagttgcttgtgc------taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAATCGCAGGACCGTGAACCGTCCTTACGGTGGTGTCCTGTCTGGTACTGCAG
       | || |||||| | | |  |     |||   |  |   |  | | |||||  |||||| | | ||  |  ||   ||  |||  |      ||| ||||||||||||||| ||||||||||||| ||||||||||| |||||| |  |||| ||||||||||| |||||  | ||||| |||||  | || ||    || |
-------ttaattaagttgtttatccaaatacatccctaagta-gtgatgagcattgagcaatatgccttgtattatcatgattttttgatcctgacttaatctgcagATTCCACACTTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCTCGGAACCGCAGGACCGTAAACCGAGCCTACGGAGGTGTTTTATCAGGAGGAGCTG

upper sequence: LOC_Os08g06040.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA02G11920.1 (Glycine max), 3'ss of exon 2
aattggttgaaataagtttt---ctttgaacc-ggtatcttaagcttcat-tgttaacattgcaatatccttggttcttacaaagttgcttgtgctaaac---tgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAATCGCAGGACCGTGAACCGTCCTTACGGTGGTGTCCTGTCTGGTACTGCAG
         | |||  ||||   ||||   |  || |  ||| | ||| | ||||   ||   | |||   |  || | |   | |   || ||||  ||   |||||||||||||| |||| ||||| ||||||||||| || || ||  | || || || ||||| || |||||| | || || || ||  ||||||| | ||| |
--------cagatatttttttggctttatgcgagggacattatgtttcctgtgtttggataaaattatatatctttttcaactactaatttatgcttgacaattgcagATTCCACACTTGAGGCCTGCAGAGTACAAGAGATCAAGGTTACCCAGAAACCGTAGGACTGTCAACCGTGCATATGGCGGAGTTTTGTCTGGAAGTGCTG

upper sequence: LOC_Os08g06040.1 (Oryza sativa), 3'ss of exon 2
lower sequence: GLYMA01G05740.1 (Glycine max), 3'ss of exon 2
aattggttgaaataagttttctttgaacc-ggtatcttaagcttcat-tgttaacattgcaatatccttggttcttacaaagttgcttgtgctaaac---tgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAATCGCAGGACCGTGAACCGTCCTTACGGTGGTGTCCTGTCTGGTACTGCAG
        ||  |   ||| ||||      || |  ||| | ||| | ||||   ||   | ||    |  || | | |   |   || ||||  ||   |||||||||||||| |||| ||||| |||||||||||||| || ||  | || || || ||||| || |||||| | || ||||| ||  | ||||| | ||| |
-----ccagatgtttttttgctttacgtgagggacattatgtttcctgtgtttggataaaattacatatctttttcaaattctaatttatgcttgacaattgcagATTCCACACTTGAGGCCTGCAGAGTACAAGAGGTCAAGGTTACCCAGAAACCGTAGGACTGTCAACCGTGCATATGGTGGAGTTTTATCTGGAAGTGCCG

upper sequence: LOC_Os08g06040.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AT3G28900.1 (Arabidopsis thaliana), 3'ss of exon 2
aattggttgaaataagttttctttgaaccggtatcttaagcttcattgttaacattgcaatatccttggttctta--caaagttgcttgtgctaaa---ctgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAATCGCAGGACCGTGAACCGTCCTTACGGTGGTGTCCTGTCTGGTACTGCAG
  ||  |    ||| | ||  | | ||  |       ||    ||||  |    ||| | || | | | ||||||  |     |   | || |      ||||||||||| ||  ||||||||||||||||||| ||||| || ||| |||||||    ||||| ||||| ||| | || |||||||| || |||||   ||| |
--ttactc---atatgcttaatctcaatagaacctcaaaaacacattcctttttttgaattagcatggtttcttaagctttactttctatgtttgttttctgcagATTCCGCATTTGAGACCTGCTGAGTACAAAAGGTCAAGGTTGGCAAGGAACGAGAGGACAGTGAATCGTGCATATGGTGGTGTTCTATCTGGAGTTGCTG

upper sequence: LOC_Os08g06040.1 (Oryza sativa), 3'ss of exon 2
lower sequence: AT1G26880.1 (Arabidopsis thaliana), 3'ss of exon 2
aattggttgaaataagttttctttgaaccggtatct---taagcttcattgt-taacattgcaatatccttggttcttacaaagttgcttgtgctaaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAATCGCAGGACCGTGAACCGTCCTTACGGTGGTGTCCTGTCTGGTACTGCAG
      |||  |||| |||||  |  |     | ||   || | || ||| |  ||      | |    |||  |  |   ||     ||||       | ||||| || ||| |||| ||  |||||||||||||||| ||||| ||||| ||  | ||||| || |||||  | |||||||| ||| |||||||| ||||||
----ctttggcataaattttcagtttattcccaactatatatgtttgattatgcaatggcatattccttttgcattatgtgaataactttgtttgtttattcagATCCCTCACTTGAGGCCCTCTGAGTACAAGAGGTCAAGATTATCAAGAAACAGGAGGACTGTAAACCGAGCATACGGTGGAGTCTTGTCTGGTTCTGCAG

upper sequence: LOC_Os08g06040.1 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv14s0108g00850.t01 (Vitis vinifera), 3'ss of exon 2
------aattggttgaaataagttttctttgaaccggtatcttaagcttcattgttaacattgcaatatccttggttcttacaaagttgcttgtgctaaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAATCGCAGGACCGTGAACCGTCCTTACGGTGGTGTCCTGTCTGGTACTGCAG
      |     || |  |  |||| |||   |   | | | ||   |    |   |   |  |||| |      |||||  | | ||  |||  |||  ||||||||||| ||||||||||||||||| ||||||||||| |||||| ||||||| || ||||| ||||||||  | || || |||||  |||| |||  ||| |
gtggccagagttttcacttgtgtttacttgtgattagaaccatatattctgcttcaattgtgtcaatttt-----ttcttttacaattctttgatctat-ctgcagATTCCTCACCTGAGACCTGCTGAATACAAGAGGTCTAGATTGCCAAGGAACCGTAGGACTGTGAACCGGGCCTATGGAGGTGTTTTGTCGGGTGGTGCTG

upper sequence: LOC_Os08g06040.1 (Oryza sativa), 3'ss of exon 2
lower sequence: Vv01s0026g02410.t01 (Vitis vinifera), 3'ss of exon 2
--aattggttgaaataagttttctttgaaccggtatcttaagcttcattgttaacattgcaat--atccttggttcttacaaa--gttgcttgtgctaaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAATCGCAGGACCGTGAACCGTCCTTACGGTGGTGTCCTGTCTGGTACTGCAG
        ||   |||   ||| ||  | |    |  ||    |  ||  |||| ||| || |  ||  |||| | | | | |  ||||  | ||     ||||||||||| ||||| |||||||| || ||||||||||| |||||  | ||||| || ||||| ||||||||| |||| || |||||  |||||||   ||| |
actgcacattttgatagcatttattgtagc--acaatttggtttgtatacttaaaatttcagtgcatttttggatgtgatagaatgttggctatgt----ctgcagATTCCTCACCTAAGACCTGCAGAATACAAGAGGTCTAGATTACCTAGGAACCGTAGGACTGTGAACCGTGCTTATGGGGGTGTGTTGTCTGGAGGTGCTG

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|86509453|gb|CI152086.1|CI152086
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88471627|gb|CI408898.1|CI408898
EST:     GAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: GAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88992083|gb|CI035221.1|CI035221
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88392096|gb|CI683927.1|CI683927
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|10794904|gb|AU108870.1|AU108870
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|86253316|gb|CI058241.1|CI058241
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88976264|gb|CI024481.1|CI024481
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|287280|gb|D16082.1|D16082
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88271756|gb|CI387809.1|CI387809
EST:     TGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: TGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|86418011|gb|CI032220.1|CI032220
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|15847674|gb|BI795838.1|BI795838
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88384323|gb|CI551249.1|CI551249
EST:     AGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88490488|gb|CI427760.1|CI427760
EST:     CCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: CCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88506594|gb|CI434100.1|CI434100
EST:     GGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: GGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|58674240|gb|CK062926.1|CK062926
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88320229|gb|CI520773.1|CI520773
EST:     AAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|3090473|gb|C93460.1|C93460
EST:     AGCGGGCGAGCGTGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88381733|gb|CI682405.1|CI682405
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88212849|gb|CI210700.1|CI210700
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAGGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|427534|gb|D23601.1|D23601
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|86423139|gb|CI060712.1|CI060712
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88511547|gb|CI439053.1|CI439053
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88962927|gb|CI025413.1|CI025413
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|11565085|gb|AU165721.1|AU165721
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|86253281|gb|CI058206.1|CI058206
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88208339|gb|CI208188.1|CI208188
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|86416360|gb|CI030371.1|CI030371
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|89170363|gb|CI039640.1|CI039640
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88345129|gb|CI628383.1|CI628383
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|89198979|gb|CI253053.1|CI253053
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|86531179|gb|CI171385.1|CI171385
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88263329|gb|CI367103.1|CI367103
EST:     CCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: CCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|4879891|gb|AU064190.1|AU064190
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|9788908|gb|BE530918.1|BE530918
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|88413236|gb|CI523797.1|CI523797
EST:     CGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: CGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
EST: gi|4879856|gb|AU064155.1|AU064155
EST:     AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGA                         ATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT
genomic: AGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAAT

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: 72 (upstream exon), 73 (downstream exon)
Score: 64

GTGGGAGGCTTGTGTACCAGTACACCAAGAAGCGGGCGAGCGGGCCGAAATGCCCAGTCACCGGGAAGAAGATCCAAGGAgtatgtgctg ... taaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAATCGCAGGACCGTGAACCGTCCTTACGGTGGTGTCCTGTCTGGTACTGCAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgttaacattgcaatatccttggttcttacaaagttgcttgtgctaaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAATCGCAGGACCGTGAACCGTCCTTACGGTGGTGTCCTGTCTGGTACTGCAG
                                          tgctaaa  putative branch site (score: 64)
                           ttacaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattggttgaaataagttttctttgaaccggtatcttaagcttcattgttaacattgcaatatccttggttcttacaaagttgcttgtgctaaactgcagATTCCACACCTGAGACCTGCTGAGTACAAGAGGTCCAGATTGTCAAGGAATCGCAGGACCGTGAACCGTCCTTACGGTGGTGTCCTGTCTGGTACTGCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - gaaataa
- - - - - - - - - - - -tgaaccg
- - - - - - - - - - - - - - - - - - - - - - - - - - cattgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tggttct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttgctt