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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagaacacaaagttcctgtttttttcttgctctctttcctccacacatccgtgacgtgttcttagagcacttttttcttttccagCAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTG

Basic information

species Selaginella moellendorffii
transcript EFJ06085
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|169100256|gb|FE501911.1|FE501911
EST:     GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTG                         CAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
genomic: GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTGgtaagaacac ... tcttttccagCAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
EST: gi|169053684|gb|FE461503.1|FE461503
EST:     GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTG                         CAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
genomic: GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTGgtaagaacac ... tcttttccagCAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
EST: gi|169104736|gb|FE508984.1|FE508984
EST:     GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTG                         CAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
genomic: GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTGgtaagaacac ... tcttttccagCAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
EST: gi|169100257|gb|FE501912.1|FE501912
EST:     GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTG                         CAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
genomic: GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTGgtaagaacac ... tcttttccagCAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
EST: gi|169104735|gb|FE508983.1|FE508983
EST:     GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTG                         CAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
genomic: GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTGgtaagaacac ... tcttttccagCAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
EST: gi|169053685|gb|FE461504.1|FE461504
EST:     GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTG                         CAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
genomic: GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTGgtaagaacac ... tcttttccagCAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
EST: gi|169113971|gb|FE516442.1|FE516442
EST:     GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTG                         CAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
genomic: GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTGgtaagaacac ... tcttttccagCAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
EST: gi|70671101|gb|DN839678.1|DN839678
EST:     GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTG                         CAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
genomic: GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTGgtaagaacac ... tcttttccagCAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
EST: gi|169052926|gb|FE460641.1|FE460641
EST:     GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTG                         CAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
genomic: GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTGgtaagaacac ... tcttttccagCAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
EST: gi|169106432|gb|FE507444.1|FE507444
EST:     GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTG                         CAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
genomic: GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTGgtaagaacac ... tcttttccagCAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
EST: gi|70670502|gb|DN839079.1|DN839079
EST:     GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTG                         CAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
genomic: GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTGgtaagaacac ... tcttttccagCAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
EST: gi|169052925|gb|FE460640.1|FE460640
EST:     GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTG                         CAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA
genomic: GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTGgtaagaacac ... tcttttccagCAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAA

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: 34

GTGGATTGGATTGGCCAGAAAAATCAAATTGATGCTGgtaagaacac ... tcttttccagCAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctctttcctccacacatccgtgacgtgttcttagagcacttttttcttttccagCAAAAGATGCAGGTGTCAAGCACGTCGTGCTCGTTGGCTCCATGGGTGGAACCAACGAAAATCACCCCTTGAACTTACTGGGGAATGGAAAAATCCTG
                                     cacttttttcttttcc  CT-rich tract
                                        ttttttctttt  TA-rich tract