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

GCGGTGTTGATGATCCCTCAAAGGTGCAAACTCTACTGTTCAGTGCGACACTACCCACTTGGGTTCAACAGgtgtggtccttctcctcttcgccatattttttcttttgtagtctcactcctttcttacatgttcggtggtcatttactagagatagttgttatttttatgtcatacattgtgttaatgccgacctagaattctttttgtcgcctaggtcatatatgctaaatctgttcacctttactttgtatttcag

Basic information

species Physcomitrella patens
transcript PP1S67_231V6.1
intron # 5
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|162195493|gb|FC369350.1|FC369350
EST:     AGGTGCAAACTCTACTGTTCAGTGCGACACTACCCACTTGGGTTCAACAG                         ATCGCTCGGAAGTTTTTGAAGGCTACAAGGAAAACTGTCGATCTAGTTGGT
genomic: AGGTGCAAACTCTACTGTTCAGTGCGACACTACCCACTTGGGTTCAACAGgtgtggtcct ... tgtatttcagATCGCTCGGAAGTTTTTGAAGGCTACAAGGAAAACTGTCGATCTAGTTGGT
EST: gi|162173529|gb|FC350103.1|FC350103
EST:     AGGTGCAAACTCTACTGTTCAGTGCGACACTACCCACTTGGGTTCAACAG                         ATCGCTCGGAAGTTTTTGAAGGCTACAAGGAAAACTGTCGATCTAGTTGGT
genomic: AGGTGCAAACTCTACTGTTCAGTGCGACACTACCCACTTGGGTTCAACAGgtgtggtcct ... tgtatttcagATCGCTCGGAAGTTTTTGAAGGCTACAAGGAAAACTGTCGATCTAGTTGGT
EST: gi|162203869|gb|FC379966.1|FC379966
EST:     AGGTGCAAACTCTACTGTTCAGTGCGACACTACCCACTTGGGTTCAACAG                         ATCGCTCGGAAGTTTTTGAAGGCTACAAGGAAAACTGTCGATCTAGTTGGT
genomic: AGGTGCAAACTCTACTGTTCAGTGCGACACTACCCACTTGGGTTCAACAGgtgtggtcct ... tgtatttcagATCGCTCGGAAGTTTTTGAAGGCTACAAGGAAAACTGTCGATCTAGTTGGT
EST: gi|100415313|gb|BY975254.1|BY975254
EST:     AGGTGCAAACTCTACTGTTCAGTGCGACACTACCCACTTGGGTTCAACAG                         ATCGCTCGGAAGTTTTTGAAGGCTACAAGGAAAACTGTCGATCTAGTTGGT
genomic: AGGTGCAAACTCTACTGTTCAGTGCGACACTACCCACTTGGGTTCAACAGgtgtggtcct ... tgtatttcagATCGCTCGGAAGTTTTTGAAGGCTACAAGGAAAACTGTCGATCTAGTTGGT
EST: gi|162165696|gb|FC342263.1|FC342263
EST:     AGGTGCAAACTCTACTGTTCAGTGCGACACTACCCACTTGGGTTCAACAG                         ATCGCTCGGAAGTTTTTGAAGGCTACAAGGAAAACTGTCGATCTAGTTGGT
genomic: AGGTGCAAACTCTACTGTTCAGTGCGACACTACCCACTTGGGTTCAACAGgtgtggtcct ... tgtatttcagATCGCTCGGAAGTTTTTGAAGGCTACAAGGAAAACTGTCGATCTAGTTGGT
EST: gi|162155569|gb|FC331013.1|FC331013
EST:     AGGTGCAAACTCTACTGTTCAGTGCGACACTACCCACTTGGGTTCAACAG                         ATCGCTCGGAAGTTTTTGAAGGCTACAAGGAAAACTGTCGATCTAGTTGGT
genomic: AGGTGCAAACTCTACTGTTCAGTGCGACACTACCCACTTGGGTTCAACAGgtgtggtcct ... tgtatttcagATCGCTCGGAAGTTTTTGAAGGCTACAAGGAAAACTGTCGATCTAGTTGGT
EST: gi|162254871|gb|FC430848.1|FC430848
EST:     AGGTGCAAACTCTACTGTTCAGTGCGACACTACCCACTTGGGTTCAACAG                         ATCGCTCGGAAGTTTTTGAAGGCTACAAGGAAAACTGTCGATCTAGTTGGT
genomic: AGGTGCAAACTCTACTGTTCAGTGCGACACTACCCACTTGGGTTCAACAGgtgtggtcct ... tgtatttcagATCGCTCGGAAGTTTTTGAAGGCTACAAGGAAAACTGTCGATCTAGTTGGT

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: 32 (upstream exon), 35 (downstream exon)
Score: 15

GCGGTGTTGATGATCCCTCAAAGGTGCAAACTCTACTGTTCAGTGCGACACTACCCACTTGGGTTCAACAGgtgtggtcct ... tgtatttcagATCGCTCGGAAGTTTTTGAAGGCTACAAGGAAAACTGTCGATCTAGTTGGTGACGAGAAAATGAAGGCTAGTAACAGTGTGAGACATTTATTACTTCCGG




<











<


<