Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacgttgctctagctccataaaaaaaaatttattctaaaaagagaatgatctgctacttcggttttatagGCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAGAGTGTCCTTAGCAACATTCGAACGAGCTCTGGAATGTTTCTTTCGAAAG

Basic information

species Selaginella moellendorffii
transcript EFJ23963
intron # 3
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|169102805|gb|FE508628.1|FE508628
EST:     GTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATG                         GCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
genomic: GTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATGgtacgttgct ... ggttttatagGCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
EST: gi|169045070|gb|FE452786.1|FE452786
EST:     TGTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATG                         GCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
genomic: TGTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATGgtacgttgct ... ggttttatagGCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
EST: gi|169048713|gb|FE456571.1|FE456571
EST:     TGTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATG                         GCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
genomic: TGTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATGgtacgttgct ... ggttttatagGCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
EST: gi|169101759|gb|FE501251.1|FE501251
EST:     TGTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATG                         GCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
genomic: TGTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATGgtacgttgct ... ggttttatagGCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
EST: gi|70670204|gb|DN838781.1|DN838781
EST:     TGTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATG                         GCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
genomic: TGTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATGgtacgttgct ... ggttttatagGCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
EST: gi|169078987|gb|FE487640.1|FE487640
EST:     TGTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATG                         GCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
genomic: TGTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATGgtacgttgct ... ggttttatagGCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
EST: gi|169045069|gb|FE452785.1|FE452785
EST:     GAGTGTGATCACGTCGTGAAGATG                         GCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
genomic: GAGTGTGATCACGTCGTGAAGATGgtacgttgct ... ggttttatagGCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
EST: gi|169102806|gb|FE508629.1|FE508629
EST:     TGTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATG                         GCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
genomic: TGTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATGgtacgttgct ... ggttttatagGCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
EST: gi|169078988|gb|FE487641.1|FE487641
EST:     TGTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATG                         GCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG
genomic: TGTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATGgtacgttgct ... ggttttatagGCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAG

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: 27 (upstream exon), 34 (downstream exon)
Score: 10

AGCGTTCTTGTACAAGGGATTTATGAGTGCTGCGGAGTGTGATCACGTCGTGAAGATGgtacgttgct ... ggttttatagGCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAGAGTGTCCTTAGCAACATTCGAACGAGCTCTGGAATGTTTCTTTCGAAAG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccataaaaaaaaatttattctaaaaagagaatgatctgctacttcggttttatagGCGAAGGATAAGCTCCAAAAATCTATGGTGGCTGACAACGAGTCTGGCAAGAGTGTCCTTAGCAACATTCGAACGAGCTCTGGAATGTTTCTTTCGAAAG
                 ttctaaa  putative branch site (score: 10)
     aaaaaaaatttattct  TA-rich tract