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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGGTGCAGCAGCACCCAGCAACCTCCAATGGCCATAAGCCATTAGTAGAACTTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAATCCGAGAAAGgttcgaattcttcaacattctacaaacatgttttgctgctgctgcggagaacgtatctactcacatgtagaaatacaagttggttttcatgatatgcaccttatcatggatctttttatggagcttacatgtcggtaagtcttgatttcgaatttttctttgggtgtattcag

Basic information

species Physcomitrella patens
transcript PP1S427_2V6.2
intron # 19
splice site 5'
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|37826074|gb|BJ584086.1|BJ584086
EST:     CTTGAGATATTGAAACAACTGAAAAATGAAANCGAGCAAATCCGAGAAAG                         GTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTGA
genomic: CTTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAATCCGAGAAAGgttcgaattc ... gtgtattcagGTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTGA
EST: gi|37824994|gb|BJ583060.1|BJ583060
EST:     CTTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAATCCGAGAAAG                         GTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTGA
genomic: CTTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAATCCGAGAAAGgttcgaattc ... gtgtattcagGTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTGA
EST: gi|162199020|gb|FC372371.1|FC372371
EST:     CTTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAATCCGAGAAAG                         GTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTGA
genomic: CTTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAATCCGAGAAAGgttcgaattc ... gtgtattcagGTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTGA
EST: gi|162154935|gb|FC331977.1|FC331977
EST:     CTTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAATCCGAGAAAG                         GTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTGA
genomic: CTTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAATCCGAGAAAGgttcgaattc ... gtgtattcagGTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTGA
EST: gi|161979267|gb|EE296320.1|EE296320
EST:     TTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAATCCCGAGAAAG                         GTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTG
genomic: TTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAAT-CCGAGAAAGgttcgaattc ... gtgtattcagGTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTG
EST: gi|162183628|gb|FC359882.1|FC359882
EST:     CTTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAATCCGAGAAAG                         GTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTGA
genomic: CTTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAATCCGAGAAAGgttcgaattc ... gtgtattcagGTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTGA
EST: gi|162158726|gb|FC335574.1|FC335574
EST:     CTTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAATCCGAGAAAG                         GTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTGA
genomic: CTTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAATCCGAGAAAGgttcgaattc ... gtgtattcagGTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTGA
EST: gi|162242567|gb|FC414971.1|FC414971
EST:     CTTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAATCCGAGAAAG                         GTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTGA
genomic: CTTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAATCCGAGAAAGgttcgaattc ... gtgtattcagGTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTGA

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: 33 (upstream exon), 33 (downstream exon)
Score: 8

AGGTGCAGCAGCACCCAGCAACCTCCAATGGCCATAAGCCATTAGTAGAACTTGAGATATTGAAACAACTGAAAAATGAAAACGAGCAAATCCGAGAAAGgttcgaattc ... gtgtattcagGTGCCGGAGGTTAGAGGAGGCAAGTGAACAGAGTCTGATGTTTGAAATTGAACGTAATCGCAAATTAGAGGCTCAG




<











<


<