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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagctatacagaaaaaaagaaagaaagttcttagtaaactttcctgtgtcttgatttttccttgatttttccagGTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACGTTGCCTGCTTATTCCTTCATGGCCATCACCGTTCCTTCGCTGGGCAGCA

Basic information

species Selaginella moellendorffii
transcript EFJ22660
intron # 16
splice site 3'
intron type U2

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|169022260|gb|FE431219.1|FE431219
EST:     TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAG                         GTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG
genomic: TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAGgtcagctata ... atttttccagGTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG
EST: gi|169029631|gb|FE437302.1|FE437302
EST:     TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAG                         GTGGTTCCCAAGACTGTGACAATGTCTGGGAAAAACCAAATGGGAATAACC
genomic: TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAGgtcagctata ... atttttccagGTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG
EST: gi|169031502|gb|FE438967.1|FE438967
EST:     TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAG                         GTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG
genomic: TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAGgtcagctata ... atttttccagGTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG
EST: gi|169104812|gb|FE508709.1|FE508709
EST:     TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAG                         GTGGTTCCCAAGACTGTGACAATGTCTGGGAAAAACCAAATGGGAATAACC
genomic: TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAGgtcagctata ... atttttccagGTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG
EST: gi|169064481|gb|FE472564.1|FE472564
EST:     TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAG                         GTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG
genomic: TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAGgtcagctata ... atttttccagGTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG
EST: gi|169079022|gb|FE488585.1|FE488585
EST:     TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAG                         GTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG
genomic: TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAGgtcagctata ... atttttccagGTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG
EST: gi|169115579|gb|FE517789.1|FE517789
EST:     TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAG                         GTGGTTCCCAAGACTGTGACAATGTCTGGGAAAAACCAAATGGGAATAACC
genomic: TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAGgtcagctata ... atttttccagGTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG
EST: gi|169064482|gb|FE472565.1|FE472565
EST:     TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAG                         GTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG
genomic: TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAGgtcagctata ... atttttccagGTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG
EST: gi|169055154|gb|FE461041.1|FE461041
EST:     TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAG                         GTGGTTCCCAAGACTGTGACAATGTCTGGGAAAAACCAAATGGGAATAACC
genomic: TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAGgtcagctata ... atttttccagGTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG
EST: gi|169115578|gb|FE517788.1|FE517788
EST:     TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAG                         GTGGTTCCCAAGACTGTGACAATGTCTGGGAAAAACCAAATGGGAATAACC
genomic: TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAGgtcagctata ... atttttccagGTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG
EST: gi|169071666|gb|FE477095.1|FE477095
EST:     TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAG                         GTGGTTCCCAAGACTGTGACAATGTCTGGGAAAAACCAAATGGGAATAACC
genomic: TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAGgtcagctata ... atttttccagGTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG
EST: gi|169054490|gb|FE462158.1|FE462158
EST:     TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAG                         GTGGTTCCCAAGACTGTGACAATGTCTGGGAAAAACCAAATGGGAATAACC
genomic: TCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAGgtcagctata ... atttttccagGTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACG

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: 84

CAACATTGATGGATCATTCTGGAATTCCGCAAACTCCACTGCTGTGATTCTCACGTCAAACAACGTCATGGATGAAAATTCTTTCAGCAATCCCACGAAGgtcagctata ... atttttccagGTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACGTTGCCTGCTTATTCCTTCATGGCCATCACCGTTCCTTCGCTGGGCAGCA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aaagaaagttcttagtaaactttcctgtgtcttgatttttccttgatttttccagGTGGTTACCAAGACTGTGACAATGTCTGGGAAAAATCAAATGGGAATAACGTTGCCTGCTTATTCCTTCATGGCCATCACCGTTCCTTCGCTGGGCAGCA
                                   tttttccttgattttt  CT-rich tract
                               ttgattttt  TA-rich tract