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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagtctctttttgtctttgagttacgtttgcacattcaatatcgtgtacttttcttgctcccagGTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAAGGACATTAATGAAGTTATTCTTGTCGGCGGTTCTACTCGTATTCCAGCT

Basic information

species Selaginella moellendorffii
transcript EFJ23703
intron # 5
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|169114873|gb|FE515822.1|FE515822
EST:     ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAG                         GTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
genomic: ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAGgtagtctctt ... ttgctcccagGTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
EST: gi|169104027|gb|FE505040.1|FE505040
EST:     ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAG                         GTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
genomic: ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAGgtagtctctt ... ttgctcccagGTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
EST: gi|169021042|gb|FE430651.1|FE430651
EST:     ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAG                         GTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
genomic: ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAGgtagtctctt ... ttgctcccagGTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
EST: gi|169029193|gb|FE439399.1|FE439399
EST:     ACTATGACTCGGGCTAAGTTCGAGGAATTGTGTTCAGATTTGCTGGACAG                         GTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCANAGCTGACATTCAA
genomic: ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAGgtagtctctt ... ttgctcccagGTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
EST: gi|169047500|gb|FE455695.1|FE455695
EST:     ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAG                         GTGCCGCACGCCAGTGGAAAATGCTTTG
genomic: ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAGgtagtctctt ... ttgctcccagGTGCCGCACGCCAGTGGAAAATGCTTTG
EST: gi|169081877|gb|FE486424.1|FE486424
EST:     ACTATGACTCGGGCTAAGTTCGAGGAATTGTGTTCAGATTTGCTGGACAG                         GTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
genomic: ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAGgtagtctctt ... ttgctcccagGTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
EST: gi|169079168|gb|FE488653.1|FE488653
EST:     ACTATGACTCGGGCTAAGTTCGAGGAATTGTGTTCAGATTTGCTGGACAG                         GTGCCGCACGCCAGTGGAAAACTGCTT-GAGAGACGCAAAGCTGACATTCA
genomic: ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAGgtagtctctt ... ttgctcccagGTGCCGCACGCCAGTGGAAAA-TGCTTTGAGAGACGCAAAGCTGACATTCA
EST: gi|169082126|gb|FE490586.1|FE490586
EST:     ACTATGACTCGGGCTAAGTTCGAGGAATTGTGTTCAGATTTGCTGGACAG                         GTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCANAGCTGACATTCAA
genomic: ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAGgtagtctctt ... ttgctcccagGTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
EST: gi|169041609|gb|FE448218.1|FE448218
EST:     ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAG                         GTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCANAGCTGACATTCAA
genomic: ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAGgtagtctctt ... ttgctcccagGTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
EST: gi|169022591|gb|FE429670.1|FE429670
EST:     ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAG                         GTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCANAGCTGACATTCAA
genomic: ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAGgtagtctctt ... ttgctcccagGTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
EST: gi|169051045|gb|FE458215.1|FE458215
EST:     ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAG                         GTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
genomic: ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAGgtagtctctt ... ttgctcccagGTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
EST: gi|169021803|gb|FE429917.1|FE429917
EST:     ACTATGACTCGGGCTAAGTTCGAGGAATTGTGTTCAGATTTGCTGGACAG                         GTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
genomic: ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAGgtagtctctt ... ttgctcccagGTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
EST: gi|169100203|gb|FE502417.1|FE502417
EST:     ACTATGACTCGGGCTAAGTTCGAGGAATTGTGTTCAGATTTGCTGGACAG                         GTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
genomic: ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAGgtagtctctt ... ttgctcccagGTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
EST: gi|169082946|gb|FE491146.1|FE491146
EST:     ACTATGACTCGGGCTAAGTTCGAGGAATTGTGTTCAGATTTGCTGGACAG                         GTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA
genomic: ACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAGgtagtctctt ... ttgctcccagGTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAA

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: 53

CTTGCCTTTCATCACGGCGACTGCGGATGGGCCGAAGCATATTGACGCAACTATGACTCGGGCTAAGTTTGAGGAATTGTGTTCAGATTTGCTGGACAGgtagtctctt ... ttgctcccagGTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAAGGACATTAATGAAGTTATTCTTGTCGGCGGTTCTACTCGTATTCCAGCT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgtctttgagttacgtttgcacattcaatatcgtgtacttttcttgctcccagGTGCCGCACGCCAGTGGAAAATGCTTTGAGAGACGCAAAGCTGACATTCAAGGACATTAATGAAGTTATTCTTGTCGGCGGTTCTACTCGTATTCCAGCT
                                     tacttttcttgctccc  CT-rich tract
                        attcaatat  TA-rich tract