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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agccatggaatcatgttaaggttaaatttctttgctttacaattactgctctcaattgactatgttgtaaattagttggtctttctatgctgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTGCGAGGGTCATTGTTGCAATTGAAAACCCTCAGGACATCATTGTGCAGTC

Basic information

species Oryza sativa
transcript LOC_Os07g42450.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os07g42450.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GRMZM2G159237_T02 (Zea mays), 3'ss of exon 1
----agccatggaatcatgttaaggttaaatttctttgctttacaattactgctctcaattgactatgttgtaaattagttggtctttctatgctgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTGCGAGGGTCATTGTTGCAATTGAAAACCCTCAGGACATCATTGTGCAGTC
       | | |     || |||  |  | || |||    |  ||||| ||  |  | |       || | |    || ||  | |    ||  | | |||||||||||||||||||||||||||| ||||||||||| ||||| |||||||| || |||||||| ||||| ||||| || || |||||||| || ||||||||
aatggctcgtagttcagtgctaac-tcgagttgcttatgctggcaatttcttatacctaacagtagtgcttttgtata-ttattatcatcat--tatctttcagGTATCTACATTATTAACCTTGGAAAGACCTGGGACAAGCTTCAGTTGGCCGCCAGGGTCATCGTTGCCATTGAGAATCCGCAGGACATTATCGTGCAGTC

upper sequence: LOC_Os07g42450.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA07G04890.1 (Glycine max), 3'ss of exon 1
------------------------------------------agccatggaatcatgttaaggttaaatttc--------tttgctt-----tacaattactgctctcaattgactatgttgtaaattagttg-gtctttctatgctgtttt---tcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTGCGAGGGTCATTGTTGCAATTGAAAACCCTCAGGACATCATTGTGCAGTC
                                            | || | ||  |    |  ||||||| |        |||| ||     | ||||   ||   |  |  || |   || |  ||| | || ||  | || ||   |||    | ||| || ||||||||||||||||| ||||| ||||||||||| ||| | || || ||||| || ||||||||||| ||||| ||||| |||||||| || ||
gtaactaaaaccctagctcatcctctcttttcatcgatctctgacaatcgcatgttaaacaatttaaattccaatggatgtttgtttgaacctgcaatagttgtaatagacggatttgatttttgatttgctgtgttgtgctgtggattttggaattagGGATTTACATTATTAACCTTGGGAAGACGTGGGAGAAGCTTCAGCTAGCAGCTAGGGTTATAGTTGCAATTGAGAACCCCCAGGATATCATTGTTCAATC

upper sequence: LOC_Os07g42450.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA08G17000.1 (Glycine max), 3'ss of exon 1
-----agccatggaatcatgttaaggttaaatttctttgct-ttacaattactgctctcaattgactatgttgtaaattagttggtctttctatgctgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTGCGAGGGTCATTGTTGCAATTGAAAACCCTCAGGACATCATTGTGCAGTC
          || |    ||||| |   |  |    |||||  |  |||     |  |     |  | ||||| |  || || |     | |||| | |||||||||||| ||||| ||||||||||| ||||| ||||||||||| ||| | ||||| ||| | || || || ||||| ||||| ||||| ||||| || |||||
tttttttttttgtaccgctgttatgaagatttcctcttgctactgaaatagagacattttggagtttttgttgaatttttgtgg-----tttatgtt-tttttcagGTATTTACATAATTAACCTTGGAAAGACATGGGAGAAGCTTCAGCTTGCTGCTAGGATTATAGTCGCCATTGAGAACCCACAGGATATCATCGTTCAGTC

upper sequence: LOC_Os07g42450.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA15G42150.1 (Glycine max), 3'ss of exon 1
agccatggaatcatgttaaggttaaatttctttgctttacaattactgctctcaattgactatgttgtaaattagttggtctttctatgctgt---ttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTGCGAGGGTCATTGTTGCAATTGAAAACCCTCAGGACATCATTGTGCAGTC
 ||  | |  |  |   |  | |  |       | ||| |  || || ||   ||| ||  || ||| |  ||   | |  ||| | || | |   ||||||||||| ||||| ||||||||||||||||| ||||||||||||||| | ||||| ||| | |||||||| ||||| ||||| ||||| |||||||| |||||
ggcgtttgcttttttgcaccgct--accatgaaggtttcctcttgctactga-aatagaacattttggagtttttgttgaatttttgtggtttatgttttcagGTATTTACATAATTAACCTTGGCAAGACATGGGAGAAGCTCCAGCTCGCTGCTAGGATTATTGTTGCCATTGAGAACCCACAGGATATCATTGTTCAGTC

upper sequence: LOC_Os07g42450.1 (Oryza sativa), 3'ss of exon 1
lower sequence: GLYMA16G01460.1 (Glycine max), 3'ss of exon 1
--------------------------------agccatggaatcatgttaaggttaaat---ttctttgctttacaattactgctctcaattgactatgttgtaaattagttggtctttctatg---ctgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTGCGAGGGTCATTGTTGCAATTGAAAACCCTCAGGACATCATTGTGCAGTC
                                | |     ||  |  ||||  || |||   |  ||   | | ||||  |||   |  |   | |   || | | ||  || |   |  | ||    ||    | ||| || ||||||||||||||||| ||||| ||||||||||| ||||| || || ||||| |||||||||||||| ||||||||||| |||||||| || ||
gtaactgaacttttctcgttctctcttttatcatctcgttaaaaaaattaaatttcaatggatgtttgaatctgcaatagctgtaatagaggaattgaattttgatttgatttggtgtggtttggatttgggaattagGGATTTACATTATTAACCTTGGGAAGACATGGGAGAAGCTTCAGTTAGCAGCTAGGGTTATTGTTGCAATTGAGAACCCTCAGGATATCATTGTTCAATC

upper sequence: LOC_Os07g42450.1 (Oryza sativa), 3'ss of exon 1
lower sequence: AT1G72370.2 (Arabidopsis thaliana), 3'ss of exon 1
agccatggaatcatgttaaggttaaatttctttgctttacaattactgctctcaattgactatgttgtaaattag--ttggtcttt----ctatgctgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTGCGAGGGTCATTGTTGCAATTGAAAACCCTCAGGACATCATTGTGCAGTC
      | | |  || ||  ||    | |  ||||| |   |||     |  ||||||    || ||   ||     || || |||     | |  |  || |||||||| |||||  | ||||||||||| || ||||| ||||||||| ||||||| || || |||||||| ||||| ||||| ||||||||||| || |||||
------gtatttgtgctagtgtgtgttattgttgctcttttattgtaatttacaattgtaagtggtgagtatggaacttagtttttgaagttttcgtcattctcagGTATTTACATCTTCAACCTTGGCAAAACATGGGAAAAGCTCCAGATGGCTGCTAGAGTTATTGTTGCCATTGAGAACCCACAGGACATCATCGTCCAGTC

upper sequence: LOC_Os07g42450.1 (Oryza sativa), 3'ss of exon 1
lower sequence: Vv09s0002g00610.t01 (Vitis vinifera), 3'ss of exon 1
---agccatggaatcatgttaaggttaaat---ttctttgctttacaattactgctctcaattgactatgttgtaaattagttggtctttctatgctgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTGCGAGGGTCATTGTTGCAATTGAAAACCCTCAGGACATCATTGTGCAGTC
   | |   ||||  ||   | | ||  ||   |  |  | |||  |  ||          ||| | |  || |||  |  || |||||||||      |  ||||| || ||||| || |||||||| || || ||||||||||| ||| | || || ||||| |||||||| ||||| |||||| ||||||||||||| |||||
accatctgcggaaa-ataacatgatttgatggatgatcggttttgtagatatgaaatgattttgccaaaattttaagatcttttgtctttctaa-----tgatcagGGATTTACATCATCAACCTTGGAAAAACATGGGAGAAGCTGCAGCTTGCAGCCAGGGTGATTGTTGCGATTGAGAACCCTAAGGACATCATTGTTCAGTC

upper sequence: LOC_Os07g42450.1 (Oryza sativa), 3'ss of exon 1
lower sequence: PP1S173_16V6.1 (Physcomitrella patens), 3'ss of exon 1
--------------------------------------------------------------------------------------agccatggaatcatgttaaggtta-aatttctttgctttacaattac---tgctctcaattgactatgttgtaaattagttggtctttcta---tg------ctgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTGCGAGGGTCATTGTTGCAATTGAAAACCCTCAGGACATCATTGTGCAGTC
                                                                                       |  | ||  ||  | | | | || || || |||  |  ||   |     || | |  |  |    || | |    | ||||    || |    ||      | |||   ||||||| | ||| |||||  | || ||||| |  ||||||||  || |||| |||||||| |||| ||| || || ||||||||||||||||||||||||||
gtgagaactctgtcccctccattgtttgtcctcgtcccggtgtgttatcggtgtgggcttggggtgagaagtttctgtgttatgaatgataagggttcggggtgaagatacaagtttttttttggacgtgtgtatatgttttggacgggtcgtggtttggggtggttgactattgtggcttggcgggtccgttgcgcagGTATTTTCATCATTAATGTGGGAAAGACTTACGAGAAGCTGGAGCTGGCGGCGAGGGTGATTGCTGCCATCGAGAACCCTCAGGACATCATTGTGCAGTC

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|58694274|gb|CK082961.1|CK082961
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|58654399|gb|CK043079.1|CK043079
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTGAGGAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCT
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATT-ATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCT
EST: gi|218493262|gb|FG949073.1|FG949073
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGG
EST: gi|29680688|gb|CB676963.1|CB676963
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|218501372|gb|FG950520.1|FG950520
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|58667560|gb|CK056246.1|CK056246
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|2310638|gb|C26793.1|C26793
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|58686193|gb|CK074880.1|CK074880
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|58679244|gb|CK067931.1|CK067931
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|66915310|gb|CX102158.1|CX102158
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|29680643|gb|CB676918.1|CB676918
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|86830369|gb|CI290483.1|CI290483
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|58608869|gb|CK036902.1|CK036902
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|218488066|gb|FG950219.1|FG950219
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|58684315|gb|CK073002.1|CK073002
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|58660718|gb|CK049398.1|CK049398
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|88314244|gb|CI602576.1|CI602576
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|58682367|gb|CK071054.1|CK071054
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|55410359|gb|CV722735.1|CV722735
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|58601038|gb|CK011566.1|CK011566
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|88731627|gb|CI755240.1|CI755240
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|88329995|gb|CI652384.1|CI652384
EST:     GAANTGGGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAACACCTGCGACAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|58659623|gb|CK048303.1|CK048303
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|218482676|gb|FG959725.1|FG959725
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
EST: gi|58656933|gb|CK045613.1|CK045613
EST:     GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACG                         GTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG
genomic: GAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTG

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), 69 (downstream exon)
Score: 6

GAGCAGGACATCCAGATGATGCTCGCCGCGGACGTCCACCTCGGCACCAAGAACTGCGACTTCCAGATGGAGCGCTACGTCTACAAGCGCCGCACTGACGgtaccgatct ... tgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTGCGAGGGTCATTGTTGCAATTGAAAACCCTCAGGACATCATTGTGCAGTC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgctctcaattgactatgttgtaaattagttggtctttctatgctgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTGCGAGGGTCATTGTTGCAATTGAAAACCCTCAGGACATCATTGTGCAGTC
        aattgac  putative branch site (score: 6)
                                            ctgtttttc  putative PPT
               tatgttgtaaatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agccatggaatcatgttaaggttaaatttctttgctttacaattactgctctcaattgactatgttgtaaattagttggtctttctatgctgtttttcagGTATCTACATTATTAACCTTGGCAAGACCTGGGAGAAGCTCCAGTTGGCTGCGAGGGTCATTGTTGCAATTGAAAACCCTCAGGACATCATTGTGCAGTC

-gccatgg
- - - - -atcatgt
- - - - - - - - - - - - - - - -ttgcttt
- - - - - - - - - - - - - - - - - - - - - ttactgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgttgt