Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTGGAGTCTTTGAGTCAGAGCGGTTATACGAAGAGCCTCGGCAGAGGCCGAGCTCCCGCTGTCATCGTTCTTGCACCTACCCGTGAATTAGCGAAACAAgtaagatttgtgggactcggaatcactctgttgtatgaagttaccgcacatgactccagtcttttatcaaagtacgatataattgtatatatctttaaattccatcgatattgacctacgtttgagtcattcag

Basic information

species Physcomitrella patens
transcript PP1S40_169V6.1
intron # 2
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|100392613|gb|BY971797.1|BY971797
EST:     GAGCTCCCGCTGTCATCGTTCTTGCACCTACCCGTGAATTAGCGAAACAA                         GTGCATGCAGACTTTGAGACTTACGGGAATGCAGTTGGATTGAGCACCGTT
genomic: GAGCTCCCGCTGTCATCGTTCTTGCACCTACCCGTGAATTAGCGAAACAAgtaagatttg ... agtcattcagGTGCATGCAGACTTTGAGACTTACGGGAATGCAGTTGGATTGAGCACCGTT
EST: gi|162166233|gb|FC342631.1|FC342631
EST:     GAGCTCCCGCTGTCATCGTTCTTGCACCTACCCGTGAATTAGCGAAACAA                         GTGCATGCAGACTTTGAGACTTACGGGAATGCAGTTGGATTGAGCACCGTT
genomic: GAGCTCCCGCTGTCATCGTTCTTGCACCTACCCGTGAATTAGCGAAACAAgtaagatttg ... agtcattcagGTGCATGCAGACTTTGAGACTTACGGGAATGCAGTTGGATTGAGCACCGTT
EST: gi|162201473|gb|FC377407.1|FC377407
EST:     CGTGAATTAGCGAAACAA                         GTGCATGCAGACTTTGAGACTTACGGGAATGCAGTTGGATTGAGCACCGTT
genomic: CGTGAATTAGCGAAACAAgtaagatttg ... agtcattcagGTGCATGCAGACTTTGAGACTTACGGGAATGCAGTTGGATTGAGCACCGTT
EST: gi|162167302|gb|FC342290.1|FC342290
EST:     GCACCTACCCGTGAATTAGCGAAACAA                         GTGCATGCAGACTTTGAGACTTACGGGAATGCAGTTGGATTGAGCACCGTT
genomic: GCACCTACCCGTGAATTAGCGAAACAAgtaagatttg ... agtcattcagGTGCATGCAGACTTTGAGACTTACGGGAATGCAGTTGGATTGAGCACCGTT

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), 29 (downstream exon)
Score: 54

TCTGGAGTCTTTGAGTCAGAGCGGTTATACGAAGAGCCTCGGCAGAGGCCGAGCTCCCGCTGTCATCGTTCTTGCACCTACCCGTGAATTAGCGAAACAAgtaagatttg ... agtcattcagGTGCATGCAGACTTTGAGACTTACGGGAATGCAGTTGGATTGAGCACCGTTTGTGTCTATGGTGGAGCCCCTTACGGGCCACAAGAGAATGCTCTAAGGA




<











<


<