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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtttttcctccttcctttcgtgtttcaagggatcatgaaaacgttttggacagGAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGACAAACATTGCTCATGTATCCGACTTATCGAGCATGATAACACTGGCGAT

Basic information

species Selaginella moellendorffii
transcript EFJ07654
intron # 4
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|169039187|gb|FE448823.1|FE448823
EST:     CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACA                         GAATTGTTAGAGACAAGCCCGTCCCGATACCTTCTCCGGGGATCCAAGTGA
genomic: CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACAgtaagttttt ... ttttggacagGAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGA
EST: gi|169028845|gb|FE438570.1|FE438570
EST:     CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACA                         GAATTGTTAGAGACAAGCCCGTCCCGATACCTTCTCCGGGGATCCAAGTGA
genomic: CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACAgtaagttttt ... ttttggacagGAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGA
EST: gi|169095695|gb|FE497021.1|FE497021
EST:     CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACA                         GAATTGTTAGAGACAAGCCCGTCCCGATACCTTCTCCGGGGATCCAAGTGA
genomic: CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACAgtaagttttt ... ttttggacagGAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGA
EST: gi|169109762|gb|FE511833.1|FE511833
EST:     CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACA                         GAATTGTTAGAGACAAGCCCGTCCCGATACCTTCTCCGGGGATCCAAGTGA
genomic: CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACAgtaagttttt ... ttttggacagGAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGA
EST: gi|169064480|gb|FE472563.1|FE472563
EST:     ATGACTGGCTCCGGGAAACAACA-GGACTGCGAGGAATGGTTTTTCGACA                         GAATCGTTAGAGACAA
genomic: ATGACTGGCTCCGGGAA-CAACAAGGACTGCGAGGAATGGTTTTTCGACAgtaagttttt ... ttttggacagGAATCGTTAGAGACAA
EST: gi|169034178|gb|FE444290.1|FE444290
EST:     CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACA                         GAATTGTTAGAGACAAGCCCGTCCCGATACCTTCTCCGGGGATCCAAGTGA
genomic: CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACAgtaagttttt ... ttttggacagGAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGA
EST: gi|169082567|gb|FE489064.1|FE489064
EST:     CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACA                         GAATTGTTAGAGACAAGCCCGTCCCGATACCTTCTCCGGGGATCCAAGTGA
genomic: CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACAgtaagttttt ... ttttggacagGAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGA
EST: gi|169103551|gb|FE507398.1|FE507398
EST:     CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACA                         GAATTGTTAGAGACAAGCCCGTCCCGATACCTTCTCCAGGGATCCAAGTGA
genomic: CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACAgtaagttttt ... ttttggacagGAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGA
EST: gi|169049506|gb|FE457702.1|FE457702
EST:     CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACA                         GAATTGTTAGAGACAAGCCCGTCCCGATACCTTCTCCGGGGATCCAAGTGA
genomic: CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACAgtaagttttt ... ttttggacagGAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGA
EST: gi|169020221|gb|FE428257.1|FE428257
EST:     CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACA                         GAATTGTTAGAGACAAGCCCGTCCCGATACCTTCTCCGGGGATCCAAGTGA
genomic: CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACAgtaagttttt ... ttttggacagGAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGA
EST: gi|169053974|gb|FE461273.1|FE461273
EST:     CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACA                         GAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGA
genomic: CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACAgtaagttttt ... ttttggacagGAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGA
EST: gi|169069903|gb|FE477555.1|FE477555
EST:     CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACA                         GAATTGTTAGAGACAAGCCCGTCCCGATACCTTCTCCGGGGATCCAAGTGA
genomic: CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACAgtaagttttt ... ttttggacagGAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGA
EST: gi|169039099|gb|FE448280.1|FE448280
EST:     CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACA                         GAATTGTTAGAGACAAGCCCGTCCCGATACCTTCTCCGGGGATCCAAGTGA
genomic: CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACAgtaagttttt ... ttttggacagGAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGA
EST: gi|169064479|gb|FE472562.1|FE472562
EST:     CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACA                         GAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGA
genomic: CATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACAgtaagttttt ... ttttggacagGAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGA

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), 27 (downstream exon)
Score: 22

TACATTTCAAAGTCGGCTTTCAAGTTTTGGTCCTCGTTTAGACCACAGTACATGACTGGCTCCGGGAACAACAAGGACTGCGAGGAATGGTTTTTCGACAgtaagttttt ... ttttggacagGAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGACAAACATTGCTCATGTATCCGACTTATCGAGCATGATAACACTGGCGAT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtttttcctccttcctttcgtgtttcaagggatcatgaaaacgttttggacagGAATCGTTAGAGACAAGCCCGTCCCAATACCTTCTCCGGGGATCCAAGTGACAAACATTGCTCATGTATCCGACTTATCGAGCATGATAACACTGGCGAT
                                    atgaaaa  TA-rich tract