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'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagccgcatctccttctaaaagactctctcaaaatacttgttactgttcttccagTGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCCTGCGACAGTCGGCTGGTCTACGCCGCGTTTCTCGACGGCGCCATCGGCG

Basic information

species Selaginella moellendorffii
transcript EFJ37833
intron # 22
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|169048258|gb|FE456245.1|FE456245
EST:     AGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAA                         TGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCC
genomic: AGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAAgtaagccgca ... gttcttccagTGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCC
EST: gi|169116485|gb|FE517510.1|FE517510
EST:     AGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAA                         TGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCC
genomic: AGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAAgtaagccgca ... gttcttccagTGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCC
EST: gi|169031530|gb|FE438995.1|FE438995
EST:     AGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAA                         TGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCC
genomic: AGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAAgtaagccgca ... gttcttccagTGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCC
EST: gi|169026733|gb|FE436307.1|FE436307
EST:     AGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAA                         TGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCC
genomic: AGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAAgtaagccgca ... gttcttccagTGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCC
EST: gi|169109270|gb|FE514072.1|FE514072
EST:     AGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAA                         TGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCC
genomic: AGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAAgtaagccgca ... gttcttccagTGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCC
EST: gi|169116484|gb|FE517509.1|FE517509
EST:     AGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAA                         TGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCC
genomic: AGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAAgtaagccgca ... gttcttccagTGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCC
EST: gi|169096397|gb|FE498139.1|FE498139
EST:     AGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAA                         TGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCC
genomic: AGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAAgtaagccgca ... gttcttccagTGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCC
EST: gi|169109271|gb|FE514073.1|FE514073
EST:     AGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAA                         TGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCC
genomic: AGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAAgtaagccgca ... gttcttccagTGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCC

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: 21

CACGAAAGTACAGTTTCACAACGACCATACTCGTCTTCTGGTCGTGCACGAGACGCAGCTAGCTATTTATGATGCCGCCAAACTAGAGCGCTTGAGTCAAgtaagccgca ... gttcttccagTGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCCTGCGACAGTCGGCTGGTCTACGCCGCGTTTCTCGACGGCGCCATCGGCG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagccgcatctccttctaaaagactctctcaaaatacttgttactgttcttccagTGGGTTCCGAAAGACAACTTCCCGGCCGGAATCTCTAGCGGAACGTATTCCTGCGACAGTCGGCTGGTCTACGCCGCGTTTCTCGACGGCGCCATCGGCG
             ttctaaa  putative branch site (score: 21)
                                           ctgttcttcc  putative PPT
                              aaaatactt  TA-rich tract