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

gtacgttatgattcaatcgattttttttatttatttttttgttctatttattgttttctcactttccttttctcaaattgcagTGTTCCTATAGCTCAAGGATATGGTCTCACCGAGACCTGCGCTGGGGCCACCTTCTCTGAGTGGGATGATACATCCGTTGGTCGTGTAGGCCCTCCAGTT

Basic information

species Selaginella moellendorffii
transcript EFJ35799
intron # 6
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|169106540|gb|FE507500.1|FE507500
EST:     GGCGCGCCCCTTTCCGGCGATACTCAGCGCTTTATCAACATCTGCTTGGG                         TGTTCCTATAGCTCAAGGATATGGTCTCACCGAGACCTGCGCTGGGGCCAC
genomic: GGCGCGCCTCTTTCCGGCGATACTCAGCGCTTTATCAACATTTGCTTGGGgtacgttatg ... caaattgcagTGTTCCTATAGCTCAAGGATATGGTCTCACCGAGACCTGCGCTGGGGCCAC
EST: gi|169038462|gb|FE446163.1|FE446163
EST:     CTCAGCGCTTTATCAACATTTGCTTGGG                         TGTTCCTATAGCTCAAGGATATGGTCTCACCGAGACCTGCGCTGGGGCCAC
genomic: CTCAGCGCTTTATCAACATTTGCTTGGGgtacgttatg ... caaattgcagTGTTCCTATAGCTCAAGGATATGGTCTCACCGAGACCTGCGCTGGGGCCAC
EST: gi|169066418|gb|FE474641.1|FE474641
EST:     GGCGCGCCCCTTTCCGGCGATACTCAGCGCTTTATCAACATCTGCTTGGG                         TGTTCCTATAGCTCAAGGATATGGTCTCACCGAGACCTGCGCTGGGGCCAC
genomic: GGCGCGCCTCTTTCCGGCGATACTCAGCGCTTTATCAACATTTGCTTGGGgtacgttatg ... caaattgcagTGTTCCTATAGCTCAAGGATATGGTCTCACCGAGACCTGCGCTGGGGCCAC
EST: gi|169102019|gb|FE507803.1|FE507803
EST:     GGCGCGCCCCTTTCCGGCGATACTCAGCGCTTTATCAACATCTGCTTGGG                         TGTTCCTATAGCTCAAGGATATGGTCTCACCGAGACCTGCGCTGGGGCCAC
genomic: GGCGCGCCTCTTTCCGGCGATACTCAGCGCTTTATCAACATTTGCTTGGGgtacgttatg ... caaattgcagTGTTCCTATAGCTCAAGGATATGGTCTCACCGAGACCTGCGCTGGGGCCAC
EST: gi|169074866|gb|FE483787.1|FE483787
EST:     GGCGCGCCTCTTTCCGGCGATACTCAGCGCTTTATCAACATTTGCTTGGG                         TGTTCCTATAGCTCAAGGATATGGTCTCACCGAGACCTGCGCTGGGGCCAC
genomic: GGCGCGCCTCTTTCCGGCGATACTCAGCGCTTTATCAACATTTGCTTGGGgtacgttatg ... caaattgcagTGTTCCTATAGCTCAAGGATATGGTCTCACCGAGACCTGCGCTGGGGCCAC
EST: gi|169032302|gb|FE439351.1|FE439351
EST:     GGCGCGCCCCTTTCCGGCGATACTCAGCGCTTTATCAACATCTGCTTGGG                         TGTTCCTATAGCTCAAGGATATGGTCTCACCGAGACCTGCGCTGGGGCCAC
genomic: GGCGCGCCTCTTTCCGGCGATACTCAGCGCTTTATCAACATTTGCTTGGGgtacgttatg ... caaattgcagTGTTCCTATAGCTCAAGGATATGGTCTCACCGAGACCTGCGCTGGGGCCAC

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), 33 (downstream exon)
Score: 14

AAAACGTTAAACGTGTTCTTGGCGGTCGTCTTCGTGGAATGCTGTCTGGTGGCGCGCCTCTTTCCGGCGATACTCAGCGCTTTATCAACATTTGCTTGGGgtacgttatg ... caaattgcagTGTTCCTATAGCTCAAGGATATGGTCTCACCGAGACCTGCGCTGGGGCCACCTTCTCTGAGTGGGATGATACATCCGTTGGTCGTGTAGGCCCTCCAGTT




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttatttttttgttctatttattgttttctcactttccttttctcaaattgcagTGTTCCTATAGCTCAAGGATATGGTCTCACCGAGACCTGCGCTGGGGCCACCTTCTCTGAGTGGGATGATACATCCGTTGGTCGTGTAGGCCCTCCAGTT
                           ttctcac  putative branch site (score: 14)
       tttttgttctatttat  CT-rich tract
     tttttttgttctattt  TA-rich tract