Skip to another splice site:
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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttcgattaaaaagcactcctcgtcgatactttacctgcagtgtctctttcctctttttaactctctttgttatttagctgaaaggcttgatatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGACCCGTTTGAATTCACTCTTGGAAATGGCCAAGTGATAAAAG

Basic information

species Zea mays
transcript GRMZM2G153991_T01
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G153991_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g68710.1 (Oryza sativa), 3'ss of exon 3
----------ttcgattaaaaagcactcctcgtcgatactttacctgcagtgtctctttcctctttttaactctctttgttatttagctgaaaggcttgata-tgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGACCCGTTTGAATTCACTCTTGGAAATGGCCAAGTGATAAAAG
             | | || ||  |    | || | |||||| ||||||  || | ||||| | |||  |         | ||| || ||||| | |||||| ||||||||||| ||||||||||||||||||| || |||||||||||||||||||||||||| |||||||| ||||||||||| ||||||||||||||||
ctcttttacaactgttaaagaaaaaaaaattgt-ggtacttt-cctgcatagtttatttccacatttcca---------tcattgagttgaaatggttgataatgctgcagGGGTCACTCACTGATGGATCAGTGTTTGATTCTAGCTATGACAGAGGTGACCCCTTTGAATTTACTCTTGGAAACGGCCAAGTGATAAAAG

upper sequence: GRMZM2G153991_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA03G21680.1 (Glycine max), 3'ss of exon 3
ttcgattaaaaagcactcctcgtcgatactttacctgcagt-gtctctttcctctttttaactctctttgttatt-tagctgaaaggcttgat-atgct-gcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGACCCGTTTGAATTCACTCTTGGAAATGGCCAAGTGATAAAAG
     || ||||    || |  |    |  | |   |  ||  | | ||  ||   |||   |     |||| |   |  | | |   |   | ||| | |||||| | ||||||||||||| | |||||||||||||||| ||| |||  | | ||  |||||||    ||||| | ||| |||||||| ||||
----tttcaaaactcatcattttgttcatatgatgaggggtcatgtattcacttagttttgttgatcatgttctagcatattatatattcactcatgtttgcagGGAAAACTCACTGATGGAACTGTTTTCGATTCTAGCTTTGAAAGAAATAATCCAATTGAATTTGAGCTTGGTACTGGTCAAGTGATCAAAG

upper sequence: GRMZM2G153991_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA16G10750.1 (Glycine max), 3'ss of exon 3
ttcgattaaaaagcactcctcgtcgatactttacctgcagt-gtctctttcctctttttaactctctttgttatt-tagctgaaaggcttgat-atgct-gcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGACCCGTTTGAATTCACTCTTGGAAATGGCCAAGTGATAAAAG
     | |||   || |     |    |  | |   | | |  |||  |  ||   |||   |     |||| ||  |  | | |   |   |  || | |||||| | ||||||||||||| | |||||||||||||||| ||| |||  | | ||  |||||||    ||||| | ||| |||||||| ||||
----ttcaaatctcattttatttgttcatgtgatgaggaatcatctactcacttagttttgttgatcatgttcttgcatattatatattcactcgtgtttgcagGGAAAACTCACTGATGGAACTGTTTTCGATTCTAGCTTTGAAAGAAATAATCCAATTGAATTTGAGCTTGGTACTGGTCAAGTGATCAAAG

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|211034324|gb|FL376241.1|FL376241
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTCACTGATGGATCAGTTTTTGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211117648|gb|FL049547.1|FL049547
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|30031799|gb|CB833650.1|CB833650
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCTCTATCGT                         GGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|91054743|gb|EB165161.1|EB165161
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|24773940|gb|CA409194.1|CA409194
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|149005134|gb|EE039667.2|EE039667
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|22819346|gb|BU499436.1|BU499436
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|148931677|gb|EC874859.2|EC874859
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211116860|gb|FL049534.1|FL049534
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGA
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGA
EST: gi|211150009|gb|FL374643.1|FL374643
EST:     CATGTACGCTGCAAS-ACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|30031800|gb|CB833651.1|CB833651
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211117646|gb|FL049545.1|FL049545
EST:     CATGTACGCTGCAASSACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211205079|gb|FL419130.1|FL419130
EST:     CATGTACGCTGCAA-SACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211117644|gb|FL049543.1|FL049543
EST:     CATGTACGCTGCAAS-ACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211117643|gb|FL049542.1|FL049542
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211116864|gb|FL049538.1|FL049538
EST:     CATGTACGCTGCAA-SACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211117642|gb|FL049541.1|FL049541
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211082659|gb|FL412223.1|FL412223
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211117649|gb|FL049548.1|FL049548
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|116823847|gb|EC867424.1|EC867424
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211116857|gb|FL049531.1|FL049531
EST:     CATGTACGCTGCAASSACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211117645|gb|FL049544.1|FL049544
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211116862|gb|FL049536.1|FL049536
EST:     CATGTACGCTGCAASSACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|22542120|gb|BU092558.1|BU092558
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211079084|gb|FL380731.1|FL380731
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|61117989|gb|DN558950.1|DN558950
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|18179296|gb|BM380506.1|BM380506
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|32865924|gb|CF005606.1|CF005606
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211453697|gb|FL370753.1|FL370753
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|149090104|gb|EE179400.2|EE179400
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211389797|gb|FL380127.1|FL380127
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|21987364|gb|BQ778892.1|BQ778892
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211122276|gb|FL373651.1|FL373651
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|149071444|gb|EE159839.2|EE159839
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|149005133|gb|EE039666.2|EE039666
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|60399310|gb|DN232124.1|DN232124
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|211059587|gb|FL481931.1|FL481931
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|149071445|gb|EE159840.2|EE159840
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
EST: gi|24773190|gb|CA408444.1|CA408444
EST:     CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGT                         GGGACACTGACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC
genomic: CATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGAC

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: 533

TACAAGCCTGAGTCATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGACCCGTTTGAATTCACTCTTGGAAATGGCCAAGTGATAAAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 587

TACAAGCCTGAGTCATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGACCCGTTTGAATTCACTCTTGGAAATGGCCAAGTGATAAAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 541

TACAAGCCTGAGTCATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGACCCGTTTGAATTCACTCTTGGAAATGGCCAAGTGATAAAAG


Block sizes: 49 (upstream exon), 49 (downstream exon)
Score: 995

TACAAGCCTGAGTCATGTACGCTGCAAGCACACAAAGGAGACAAAATTAAGGTTCACTATCGTgtaagtacct ... tatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGACCCGTTTGAATTCACTCTTGGAAATGGCCAAGTGATAAAAG




 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttcctctttttaactctctttgttatttagctgaaaggcttgatatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGACCCGTTTGAATTCACTCTTGGAAATGGCCAAGTGATAAAAG
                    tttgttattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttcgattaaaaagcactcctcgtcgatactttacctgcagtgtctctttcctctttttaactctctttgttatttagctgaaaggcttgatatgctgcagGGGACACTCACTGATGGATCAGTTTTCGATTCTAGCTATGACAGAGGTGACCCGTTTGAATTCACTCTTGGAAATGGCCAAGTGATAAAAG

- - - - - - gcactcc
- - - - - - - - - - - - - - - - -cctgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agctgaa