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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gcactcggactgagtacttttttcgatcgattttagagcattgtgcgtgaaacactacgctaactggggctcataatctaccttcgatgtgggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGACTCCAGTCAAGAAAGAG

Basic information

species Physcomitrella patens
transcript PP1S97_74V6.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S97_74V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: LOC_Os09g08430.1 (Oryza sativa), 3'ss of exon 5
gcactcggactgagtacttttttcgatcgattttagagcattgtgcgtgaaacactacgctaactggggctcataatctaccttcgatgtgggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGACTCCAGTCAAGAAAGAG
             |||  ||| || ||   |||| |     | |  ||  |   |   | |  ||  | ||||| | | |      |||    | |||||||||||||||||| || || ||||||||||| ||||| || ||||||||    ||||| |||||||||
-------------gtaagtttgtcaatacctttttgtatgctctttgtagagttcggtgatg-ctttgtctcatgagcaa------atgatactttgcagCTTACATGTCCTCCCCGTGCCACATTGAGCTTATCCTGTCAGAGAAGGAAGAACCAGTGAAGAAAGAG

upper sequence: PP1S97_74V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GRMZM2G702426_T01 (Zea mays), 3'ss of exon 5
gcactcggactgagtacttttttcgatcgattttagagcattgtgcgtgaaacactacgctaactggggctcataatctaccttcgatgtgggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGACTCCAGTCAAGAAAGAG
                  | | ||||  |||  |    |||| |   ||  |||||  | | | |||      |||| |        ||  | | |||||||||||||||||| ||||| ||||||||||| || || || ||||||||    || || |||||||||
---------------gtatgtatcgaaggatggtctttcattct---tgcgacact--gttgaatggtatatttaatgt--------tgctgttctgcagCTTACATGTCCTCCCCTTGCCACATTGAGCTGATTCTGTCAGAGAAGGAAGAGCCTGTGAAGAAAGAG

upper sequence: PP1S97_74V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GRMZM2G148744_T02 (Zea mays), 3'ss of exon 5
gcactcggactgagtacttttttcgatcgattttagagcattgtgcgtgaaacactacgctaactggggctcataatctaccttcgat---gtgggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGACTCCAGTCAAGAAAGAG
                         |   ||  ||  | ||  || |  |  || ||   |||| | |    ||| | ||  ||  ||   |  | | |||||| ||||||||||||||||| ||||||||||| ||| | || ||||||||    || || |||||||||
-----------------------gtacgtatcgtattgaatgatg-gccattcattattgtaacagtgcagaatagtatatatttaattttgccgttctgcagCCTACATGTCCTCACCTTGCCACATTGAGCTGATCTTGTCAGAGAAGGAAGAGCCTGTGAAGAAAGAG

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|18341219|gb|BJ173252.1|BJ173252
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|37850662|gb|BJ608670.1|BJ608670
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|162250608|gb|FC428199.1|FC428199
EST:     GTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|37829134|gb|BJ587146.1|BJ587146
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|162274404|gb|FC450431.1|FC450431
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|162274878|gb|FC451113.1|FC451113
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|162262677|gb|FC438472.1|FC438472
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|162235235|gb|FC412111.1|FC412111
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|18369346|gb|BJ201432.1|BJ201432
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAG
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAG
EST: gi|37844465|gb|BJ602473.1|BJ602473
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|162274403|gb|FC450430.1|FC450430
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|37823916|gb|BJ581982.1|BJ581982
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|162266465|gb|FC442501.1|FC442501
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|18327847|gb|BJ159851.1|BJ159851
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|37822217|gb|BJ580283.1|BJ580283
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|18360908|gb|BJ192972.1|BJ192972
EST:     GGCCCAGAAACAGCGTANACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|37847619|gb|BJ605627.1|BJ605627
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|37827543|gb|BJ585555.1|BJ585555
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|162272845|gb|FC448820.1|FC448820
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|37849153|gb|BJ607161.1|BJ607161
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|18348254|gb|BJ180301.1|BJ180301
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAG
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAG
EST: gi|37852997|gb|BJ611005.1|BJ611005
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|37835375|gb|BJ593387.1|BJ593387
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|37838798|gb|BJ596806.1|BJ596806
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|18343066|gb|BJ175104.1|BJ175104
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|162203338|gb|FC378785.1|FC378785
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|18373967|gb|BJ205545.1|BJ205545
EST:     GGCCCAGAAACAGCGTANACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGA
EST: gi|162266464|gb|FC442500.1|FC442500
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|18367163|gb|BJ199244.1|BJ199244
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|37825964|gb|BJ584030.1|BJ584030
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|162272844|gb|FC448819.1|FC448819
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|18350164|gb|BJ182215.1|BJ182215
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|162235236|gb|FC412112.1|FC412112
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|162230491|gb|FC407406.1|FC407406
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|162203337|gb|FC378784.1|FC378784
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|162201673|gb|FC377477.1|FC377477
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|162201674|gb|FC377478.1|FC377478
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|18344711|gb|BJ176752.1|BJ176752
EST:     GGCCCAGAAACAGCGTANACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|18336082|gb|BJ168104.1|BJ168104
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|18375101|gb|BJ206679.1|BJ206679
EST:     GGCCCAGAAACAGCGTANACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAG
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAG
EST: gi|162262676|gb|FC438471.1|FC438471
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
EST: gi|162179935|gb|FC356006.1|FC356006
EST:     GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATC                         CTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA
genomic: GGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGA

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: 35 (upstream exon), 35 (downstream exon)
Score: 52

AAAGGTCTTGATGTCGACACTCTTGTTGTATCCCACATCCAAGTAAACCAGGCCCAGAAACAGCGTAGACGTACTTACCGTGCTCACGGGCGTATCAATCgtaagttcag ... gggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGACTCCAGTCAAGAAAGAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtgaaacactacgctaactggggctcataatctaccttcgatgtgggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGACTCCAGTCAAGAAAGAG
            cgctaac  putative branch site (score: 52)
                           ataatcta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gcactcggactgagtacttttttcgatcgattttagagcattgtgcgtgaaacactacgctaactggggctcataatctaccttcgatgtgggtatgcagCTTACATGTCCTCACCTTGTCACATTGAGCTCATCCTCTCTGAGAAGGAGACTCCAGTCAAGAAAGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA