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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttcatgcaaggaaaagcttagtttctccaactaaaacctttgacagGGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGCTCTAGTGTCGACCGATTTCATTGGTGACAGCCGGTCGAGCATCTTCGAC

Basic information

species Selaginella moellendorffii
transcript EFJ30760
intron # 9
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|169110647|gb|FE514174.1|FE514174
EST:     GTCCGCTTGGAGAAGGGCGCCTCTTACGAGGAGATCAAGCAGGCAATGAA                         GGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGC
genomic: GTCCGCTTGGAGAAGGGCGCCTCTTACGAGGAGATCAAGCAGGCAATGAAgtaagttcat ... cctttgacagGGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGC
EST: gi|169058408|gb|FE466305.1|FE466305
EST:     GTCCGCTTGGAGAAGGGCGCCTCTTACGAGGAGATCAAGCAGGCAATGAA                         GGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGC
genomic: GTCCGCTTGGAGAAGGGCGCCTCTTACGAGGAGATCAAGCAGGCAATGAAgtaagttcat ... cctttgacagGGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGC
EST: gi|169055484|gb|FE465869.1|FE465869
EST:     GTCCGCTTGGAGAAGGGCGCCTCTTACGAGGAGATCAAGCAGGCAATGAA                         GGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGC
genomic: GTCCGCTTGGAGAAGGGCGCCTCTTACGAGGAGATCAAGCAGGCAATGAAgtaagttcat ... cctttgacagGGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGC
EST: gi|169101963|gb|FE504991.1|FE504991
EST:     GTCCGCTTGGAGAAGGGCGCCTCTTACGAGGAGATCAAGCAGGCAATGAA                         GGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGC
genomic: GTCCGCTTGGAGAAGGGCGCCTCTTACGAGGAGATCAAGCAGGCAATGAAgtaagttcat ... cctttgacagGGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGC
EST: gi|169067187|gb|FE474955.1|FE474955
EST:     GTCCGCTTGGAGAAGGGCGCCTCTTACGAGGAGATCAAGCAGGCAATGAA                         GGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGC
genomic: GTCCGCTTGGAGAAGGGCGCCTCTTACGAGGAGATCAAGCAGGCAATGAAgtaagttcat ... cctttgacagGGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGC
EST: gi|169069038|gb|FE477743.1|FE477743
EST:     GTCCGCTTGGAGAAGGGCGCCTCTTACGAGGAGATCAAGCAGGCAATGAA                         GGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGC
genomic: GTCCGCTTGGAGAAGGGCGCCTCTTACGAGGAGATCAAGCAGGCAATGAAgtaagttcat ... cctttgacagGGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGC
EST: gi|169043069|gb|FE453983.1|FE453983
EST:     GTCCGCTTGGAGAAGGGCGCCTCTTACGAGGAGATCAAGCAGGCAATGAA                         GGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGC
genomic: GTCCGCTTGGAGAAGGGCGCCTCTTACGAGGAGATCAAGCAGGCAATGAAgtaagttcat ... cctttgacagGGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGC

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: 28 (upstream exon), 34 (downstream exon)
Score: 25

GAATGGCCTTCCGGGTCCCAACTCCAGACGTTTCCGTCGTGGATCTTACTGTCCGCTTGGAGAAGGGCGCCTCTTACGAGGAGATCAAGCAGGCAATGAAgtaagttcat ... cctttgacagGGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGCTCTAGTGTCGACCGATTTCATTGGTGACAGCCGGTCGAGCATCTTCGAC




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtaagttcatgcaaggaaaagcttagtttctccaactaaaacctttgacagGGCCGAGTCTGAGGGGAATCTCAAGGGCATTCTCGGCTACACGGAGGACGCTCTAGTGTCGACCGATTTCATTGGTGACAGCCGGTCGAGCATCTTCGAC
                                     aactaaa  putative branch site (score: 25)
                                             ccttt  CT-rich tract
                                     aactaaaa  TA-rich tract