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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttcttgttataacatttattggagcacatagcgacattttgattctggttttggttttggctagAGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCCATCCCGGCTACATGACTGCCGAGCGGATCCAAAAGGCCAAAAACCTCAA

Basic information

species Selaginella moellendorffii
transcript EFJ13636
intron # 2
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|169029785|gb|FE441018.1|FE441018
EST:     TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAAGTTGTG                         AGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
genomic: TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTGgtaatttctt ... ttttggctagAGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
EST: gi|169106400|gb|FE507425.1|FE507425
EST:     TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTG                         AGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
genomic: TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTGgtaatttctt ... ttttggctagAGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
EST: gi|169067793|gb|FE473377.1|FE473377
EST:     TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAAGTTGTG                         AGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
genomic: TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTGgtaatttctt ... ttttggctagAGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
EST: gi|169048962|gb|FE454948.1|FE454948
EST:     TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTG                         AGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
genomic: TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTGgtaatttctt ... ttttggctagAGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
EST: gi|70670001|gb|DN838578.1|DN838578
EST:     TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTG                         AGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
genomic: TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTGgtaatttctt ... ttttggctagAGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
EST: gi|169062830|gb|FE472866.1|FE472866
EST:     TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTG                         AGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
genomic: TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTGgtaatttctt ... ttttggctagAGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
EST: gi|169079758|gb|FE491167.1|FE491167
EST:     TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAAGTTGTG                         AGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
genomic: TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTGgtaatttctt ... ttttggctagAGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
EST: gi|169101313|gb|FE502508.1|FE502508
EST:     TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTG                         AGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
genomic: TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTGgtaatttctt ... ttttggctagAGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
EST: gi|169104372|gb|FE503734.1|FE503734
EST:     TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTG                         AGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
genomic: TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTGgtaatttctt ... ttttggctagAGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
EST: gi|169060085|gb|FE468695.1|FE468695
EST:     TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTG                         AGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
genomic: TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTGgtaatttctt ... ttttggctagAGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
EST: gi|169078349|gb|FE490382.1|FE490382
EST:     TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTG                         AGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
genomic: TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTGgtaatttctt ... ttttggctagAGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
EST: gi|169088325|gb|FE492043.1|FE492043
EST:     TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTG                         AGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC
genomic: TCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTGgtaatttctt ... ttttggctagAGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCC

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: 36

TTTATTGGGAATGTTGAGAATTGCCTGGGAATTCGGCAGTGGCTCGAGGATCAGGGCCATGACTACATTGTGACTGATGACAAAGAGGGCCCAACTTGTGgtaatttctt ... ttttggctagAGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCCATCCCGGCTACATGACTGCCGAGCGGATCCAAAAGGCCAAAAACCTCAA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

taacatttattggagcacatagcgacattttgattctggttttggttttggctagAGCTGGAGAAACACATCCCAGACATGGATGTGCTAATCACCACACCATTCCATCCCGGCTACATGACTGCCGAGCGGATCCAAAAGGCCAAAAACCTCAA
                          attttgatt  TA-rich tract