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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtccaaagttttcttctcttggaagtgatcctaagttgactttattgtttttgtcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTACAAGCCCGATG

Basic information

species Selaginella moellendorffii
transcript EFJ34434
intron # 1
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|169108566|gb|FE510781.1|FE510781
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCGTCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169025759|gb|FE433669.1|FE433669
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGGTGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169114469|gb|FE516539.1|FE516539
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169057177|gb|FE464688.1|FE464688
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGGTGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169060204|gb|FE467566.1|FE467566
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169110930|gb|FE509335.1|FE509335
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169048945|gb|FE456062.1|FE456062
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGGTGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169034782|gb|FE445635.1|FE445635
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGGTGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169060973|gb|FE470603.1|FE470603
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGGTGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169110671|gb|FE509817.1|FE509817
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169031936|gb|FE440662.1|FE440662
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169044449|gb|FE451073.1|FE451073
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169065201|gb|FE474025.1|FE474025
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169058294|gb|FE466035.1|FE466035
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGGTGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169093447|gb|FE495728.1|FE495728
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169040208|gb|FE448949.1|FE448949
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169047467|gb|FE455662.1|FE455662
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGGTGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169080226|gb|FE488905.1|FE488905
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGGTGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169031798|gb|FE438483.1|FE438483
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
EST: gi|169061924|gb|FE470218.1|FE470218
EST:     ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGGTGCATTTTCTCT                         CCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC
genomic: ACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTAC

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: 130

TGGTGAGATTGGGATTGGCAGCCCGCCGCAGGTGTTCACGGTTATCTTCGACACTGGGAGCTCCAATTTGTGGGTGCCTTCCTCGCGATGCATTTTCTCTgtaagtccaa ... tcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTACAAGCCCGATG




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttcttctcttggaagtgatcctaagttgactttattgtttttgtcttctatagCCAGCGTGCTGGTTGCACCATCGCTACAAGTCCAGGAAATCGAGTACTTACAAGCCCGATG
                         agttgac  putative branch site (score: 130)
                                    ttgtttttgtcttct  putative PPT
                              actttattgttttt  TA-rich tract