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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatacctaaatcttgtcatcttaatcattatagtgaagtgttagctgtatatcaatgtttcgcagaatatatcatttcagtcacatgttttgaatgctcaactgcctatttccttgtgaaaaccagcgaatagtagtcagttgtgcaacattcttgttctggctaattgacctgatgtttctggtgttgtttcagGAACCTGGGTTATAATTACTTGACTGGTGCCATGCCATCATTCATGGGAAAATTCACTTCCATGAAATATTT

Basic information

species Oryza sativa
transcript LOC_Os05g16740.1
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|88569499|gb|CI660674.1|CI660674
EST:     GTTGGTCCAATACCTTCAGAGCTGCAGAATCTCACCTATCTAGAGGACCT                         GAACCTGGGTTATAATTACTTGACTGGTGCCATGCCATCATTCATGGGAAA
genomic: GTTGGTCCAATACCTTCAGAGCTGCAGAATCTCACCTATCTAGAGGACCTgtatgatacc ... gttgtttcagGAACCTGGGTTATAATTACTTGACTGGTGCCATGCCATCATTCATGGGAAA
EST: gi|88305855|gb|CI633435.1|CI633435
EST:     GTTGGTCCAATACCTTCAGAGCTGCAGAATCTCACCTATCTAGAGGACCT                         GAACCTGGGTTATAATTACTTGACTGGTGCCATGCCATCATTCATGGGAAA
genomic: GTTGGTCCAATACCTTCAGAGCTGCAGAATCTCACCTATCTAGAGGACCTgtatgatacc ... gttgtttcagGAACCTGGGTTATAATTACTTGACTGGTGCCATGCCATCATTCATGGGAAA
EST: gi|88302979|gb|CI668825.1|CI668825
EST:     TTGGTCCAATACCTTCAGAGCTGCAGAATCTCACCTATCTAGAGGACCCT                         GAAC-TGGGTTATAATTACTTGACTGGTGCCATGCCATCATTCATGGGAA
genomic: TTGGTCCAATACCTTCAGAGCTGCAGAATCTCACCTATCTAGAGGACC-Tgtatgatacc ... gttgtttcagGAACCTGGGTTATAATTACTTGACTGGTGCCATGCCATCATTCATGGGAA
EST: gi|88333934|gb|CI645348.1|CI645348
EST:     GTTGGTCCAATACCTTCAGAGCTGCAGAATCTCACCTATCTAGAGGACCT                         GAACCTGGGTTATAATTACTTGANTGGTGCCATGCCATCATTCATGGGAAA
genomic: GTTGGTCCAATACCTTCAGAGCTGCAGAATCTCACCTATCTAGAGGACCTgtatgatacc ... gttgtttcagGAACCTGGGTTATAATTACTTGACTGGTGCCATGCCATCATTCATGGGAAA
EST: gi|88347578|gb|CI654411.1|CI654411
EST:     GTTGGTCCAATACCTTCAGAGCTGCAGAATCTCACCTATCTAGAGGACCT                         GAACCTGGGTTATAATTACTTGACTGGTGCCATGCCATCATTCATGGGAAA
genomic: GTTGGTCCAATACCTTCAGAGCTGCAGAATCTCACCTATCTAGAGGACCTgtatgatacc ... gttgtttcagGAACCTGGGTTATAATTACTTGACTGGTGCCATGCCATCATTCATGGGAAA

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: 57 (upstream exon), 24 (downstream exon)
Score: 4

GAGGGTGACTAAGTTGGATGTTGTTGGTCCAATACCTTCAGAGCTGCAGAATCTCACCTATCTAGAGGACCTgtatgatacc ... gttgtttcagGAACCTGGGTTATAATTACTTGACTGGTGCCATGCCATCATTCATGGGAAAATTCACTTCCATGAAATATTT




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgcaacattcttgttctggctaattgacctgatgtttctggtgttgtttcagGAACCTGGGTTATAATTACTTGACTGGTGCCATGCCATCATTCATGGGAAAATTCACTTCCATGAAATATTT
                                              ttgtttc  CT-rich tract
                       taattga  TA-rich tract