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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgtgtaatgttgctcccgatctagattactcacattttaaattgatgtgtccagATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATCCAGACTCATTTATTGACACATGATA

Basic information

species Selaginella moellendorffii
transcript EFJ34631
intron # 6
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|169034851|gb|FE444040.1|FE444040
EST:     AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATT                         ATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATC
genomic: AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATTgtgtgtaatg ... atgtgtccagATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATC
EST: gi|169076791|gb|FE485834.1|FE485834
EST:     AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATT                         ATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATC
genomic: AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATTgtgtgtaatg ... atgtgtccagATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATC
EST: gi|169024271|gb|FE435223.1|FE435223
EST:     AGGATGCGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATT                         ATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATC
genomic: AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATTgtgtgtaatg ... atgtgtccagATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATC
EST: gi|169115760|gb|FE517346.1|FE517346
EST:     AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATT                         G
genomic: AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATTgtgtgtaatg ... atgtgtccag-
EST: gi|169115760|gb|FE517346.1|FE517346
EST:     AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATT                         G
genomic: AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATTgtgtgtaatg ... atgtgtccag-
EST: gi|169115760|gb|FE517346.1|FE517346
EST:     AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATT                         G
genomic: AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATTgtgtgtaatg ... atgtgtccag-
EST: gi|169115760|gb|FE517346.1|FE517346
EST:     AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATT                         G
genomic: AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATTgtgtgtaatg ... atgtgtccag-
EST: gi|169115760|gb|FE517346.1|FE517346
EST:     AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATT                         G
genomic: AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATTgtgtgtaatg ... atgtgtccag-
EST: gi|169063161|gb|FE471683.1|FE471683
EST:     AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATT                         ATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATC
genomic: AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATTgtgtgtaatg ... atgtgtccagATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATC
EST: gi|169052464|gb|FE462272.1|FE462272
EST:     AGGATGCGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATTGTGT                      
genomic: AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAA---T-Tgtgtgtaatg ... atgtgtc
EST: gi|169069505|gb|FE480576.1|FE480576
EST:     AGGATGCGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATT                         ATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATC
genomic: AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATTgtgtgtaatg ... atgtgtccagATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATC
EST: gi|169092698|gb|FE494927.1|FE494927
EST:     AGGATGCGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATT                         ATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATC
genomic: AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATTgtgtgtaatg ... atgtgtccagATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATC
EST: gi|169044545|gb|FE450610.1|FE450610
EST:     AGGATGCGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATT                         ATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATC
genomic: AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATTgtgtgtaatg ... atgtgtccagATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATC
EST: gi|169064336|gb|FE471899.1|FE471899
EST:     AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATT                         ATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATC
genomic: AGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATTgtgtgtaatg ... atgtgtccagATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATC

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), 33 (downstream exon)
Score: 16

GATGAAAATATGTTACTCGTGTGGAATCGTCAACTCGAACAGGATACGGAGAGGCTGAAAGCGGAAGCGAACAGACAACTTCTGCGAATTgtgtgtaatg ... atgtgtccagATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATCCAGACTCATTTATTGACACATGATA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtgtaatgttgctcccgatctagattactcacattttaaattgatgtgtccagATTATGTCCACATCCAATGTTGAGTGCAACGACTTGTCAACAATCAACATCCAGACTCATTTATTGACACATGATA
                                acattttaaattgat  TA-rich tract