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

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...cgagaaggataatctgcggatcgcatccgcagttagctctgactttttgagacgtgacctgaaatctgttttgatatatgcgtgatgggtggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAGGAAAGAGGCCGCTGACCAATCTTTGAAGGCATACCAG

Basic information

species Physcomitrella patens
transcript PP1S46_127V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S46_127V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: LOC_Os01g11110.2 (Oryza sativa), 3'ss of exon 2
cgagaaggataatctgcggatcgcatccgcagttagctctgactttttgagacgtgacctgaaatctgttttgatatatgcgtgatgggtggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAGGAAAGAGGCCGCTGACCAATCTTTGAAGGCATACCAG
               | |   |   |   |  || | |    ||| || | | |||   || | | |  | ||||  |||| |    | |       |||||||||||||||||| |||||||| || ||||||||||| |||| ||||| ||  || |   |||| |  ||  | || || ||  ||
---------------gtgacgctgctttaccctttgttaattcttgttaa-atgtg-tttggattattgtctgatcaatgcattcctgattt-----tagGAAGGGAGATTACTACCGGTACCTTGCAGAGTTCAAGACTGGGACTGAGAAGATTGAAGTGTCTGAACTGTCACTCAATGCTTATGAG

upper sequence: PP1S46_127V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: GLYMA08G12220.5 (Glycine max), 3'ss of exon 2
---cgagaaggataatctgcggatcgcatccgcagttagc--tctgactttttgagacgtgacctgaaatctgttttgatatatgcgtgatgggtggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAGGAAAGAGGCCGCTGACCAATCTTTGAAGGCATACCAG
    | |  |   | |   |   |    ||  ||||  |   | |    ||| |    |||       || |   || |    |   || | ||| || ||  |||||||| || || || |||||||| |||||||||||| ||||  ||||||| |||||||| ||||| || ||  ||||||| || |||
gtgagtgctgctcagttctcatttttgttcttcagtggggaatttagactttcgttttgtgtgtgttgatttaaattaagcctttgttggttggttggttg-cagGAAGGGGGACTATTACCGGTACCTCGCGGAGTTCAAGTCCGGTGATGAGAGAAAAGAGGCTGCTGATCATTCCATGAAGGCGTATCAG

upper sequence: PP1S46_127V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: Vv19s0014g01420.t01 (Vitis vinifera), 3'ss of exon 2
cgagaaggataatctgcggatcgcatccgcagttagctctgactttttgagacgtgacctgaaatctgttttgatatatgcgtgatgggtggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAGGAAAGAGGCCGCTGACCAATCTTTGAAGGCATACCAG
              |  |||     |  |   || |  |    | ||| |   | |  ||   || | | | |  || |  | | | ||| |  |   ||||| || ||||| ||||||||||||||||||||||||||||| ||||||||||||||||| ||||| || ||| | ||||||||||||
-------------gtaaggaatatgtttgagtttggtgcattttatttcatttgagtgctttgatttttgtagtaatttcagggtttggttgttt--cagGAAAGGGGATTATTATCGGTACCTGGCGGAGTTCAAGACCGGCAATGAGAGGAAAGAGGCGGCTGATCAGTCTCTTAAGGCATACCAG

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|208392104|gb|DC949550.1|DC949550
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208372972|gb|DC940603.1|DC940603
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|37826977|gb|BJ584989.1|BJ584989
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTNTANTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|100399623|gb|BY972811.1|BY972811
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208387774|gb|DC941343.1|DC941343
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|162271212|gb|FC447175.1|FC447175
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|100364763|gb|BY947896.1|BY947896
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|162272341|gb|FC448200.1|FC448200
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208374432|gb|DC941189.1|DC941189
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208364026|gb|DC950374.1|DC950374
EST:     CCGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208383174|gb|DC928216.1|DC928216
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208348585|gb|DC913257.1|DC913257
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|100421141|gb|BY976095.1|BY976095
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAGGGGAGATTACTATCGGTACC
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACC
EST: gi|208380926|gb|DC903866.1|DC903866
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208360734|gb|DC946458.1|DC946458
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTNTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208371151|gb|DC955971.1|DC955971
EST:     NTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATNAAAT                         GAAGGGAGATTACTATCNGTACCTGGCGGAGTTCAAGACCGGGAACGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|37847526|gb|BJ605534.1|BJ605534
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208363146|gb|DC954346.1|DC954346
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|100415554|gb|BY992898.1|BY992898
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|100387914|gb|BY970659.1|BY970659
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTTCA-GACCGGGAATGAGG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTT-CAAGACCGGGAATGAG-
EST: gi|208377301|gb|DC927017.1|DC927017
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|162206622|gb|FC382380.1|FC382380
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208396773|gb|DC929068.1|DC929068
EST:     CTGANTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTNTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208362580|gb|DC939504.1|DC939504
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208374603|gb|DC931956.1|DC931956
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208366230|gb|DC943804.1|DC943804
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208363024|gb|DC957979.1|DC957979
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208373768|gb|DC936567.1|DC936567
EST:     CCGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|67692292|gb|BJ952525.1|BJ952525
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|37840472|gb|BJ598480.1|BJ598480
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208365635|gb|DC935746.1|DC935746
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208394573|gb|DC953612.1|DC953612
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208358561|gb|DC946522.1|DC946522
EST:     CAGCACGGGAGAGTCCACTGCGTTTTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|162272342|gb|FC448201.1|FC448201
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208374722|gb|DC932019.1|DC932019
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGCGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|18337354|gb|BJ169378.1|BJ169378
EST:     TGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: TGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208352798|gb|DC917762.1|DC917762
EST:     GTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: GTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|37841703|gb|BJ599711.1|BJ599711
EST:     TCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: TCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
EST: gi|208359294|gb|DC954189.1|DC954189
EST:     CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAAT                         GAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG
genomic: CTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAG

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: 34 (upstream exon), 35 (downstream exon)
Score: 68

AGGAGCTGTCGAAGATCTGCAATGATATCCTGTCTATCATCGACGGACACCTGATTCCGTCGTCCAGCACGGGAGAGTCCACTGTGTTCTACTATAAAATgtatggcttc ... ggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAGGAAAGAGGCCGCTGACCAATCTTTGAAGGCATACCAG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgagacgtgacctgaaatctgttttgatatatgcgtgatgggtggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAGGAAAGAGGCCGCTGACCAATCTTTGAAGGCATACCAG
                       ttttgat  putative branch site (score: 68)
                       ttttgatatat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
cgagaaggataatctgcggatcgcatccgcagttagctctgactttttgagacgtgacctgaaatctgttttgatatatgcgtgatgggtggggtgatagGAAGGGAGATTACTATCGGTACCTGGCGGAGTTCAAGACCGGGAATGAGAGGAAAGAGGCCGCTGACCAATCTTTGAAGGCATACCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG