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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTGAAAAAGAGCTGGGTTGCAAGCGAGAGACGGACCTGGACACCATGTTATCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACGgtccgtgatcgattacctgtcacgctgaatccttcatatcctagccatttccggcactagacagaacgttacgaatgtaatattgtacacgcgttaacaacccctcccactctgacgagcttcgcatttcggtgatggaaaacgtcaacag

Basic information

species Physcomitrella patens
transcript PP1S106_16V6.1
intron # 6
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|208385885|gb|DC956723.1|DC956723
EST:     TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACG                         GGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
genomic: TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACGgtccgtgatc ... acgtcaacagGGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
EST: gi|162269932|gb|FC445423.1|FC445423
EST:     TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACG                         GGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
genomic: TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACGgtccgtgatc ... acgtcaacagGGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
EST: gi|18335876|gb|BJ167897.1|BJ167897
EST:     TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACG                         GGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
genomic: TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACGgtccgtgatc ... acgtcaacagGGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
EST: gi|18341708|gb|BJ173743.1|BJ173743
EST:     TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACG                         GGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
genomic: TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACGgtccgtgatc ... acgtcaacagGGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
EST: gi|208345467|gb|DC917350.1|DC917350
EST:     TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACG                         GGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
genomic: TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACGgtccgtgatc ... acgtcaacagGGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
EST: gi|208386186|gb|DC949097.1|DC949097
EST:     TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACG                         GGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
genomic: TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACGgtccgtgatc ... acgtcaacagGGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
EST: gi|67697753|gb|BJ957986.1|BJ957986
EST:     TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACG                         GGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
genomic: TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACGgtccgtgatc ... acgtcaacagGGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
EST: gi|162262253|gb|FC437164.1|FC437164
EST:     TCAAAGTGCGATGTCGCCGTCGTGAACACGCCCTTGACGGATCAAACACG                         GGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
genomic: TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACGgtccgtgatc ... acgtcaacagGGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
EST: gi|162272578|gb|FC448542.1|FC448542
EST:     TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACG                         GGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT
genomic: TCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACGgtccgtgatc ... acgtcaacagGGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCT

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), 34 (downstream exon)
Score: 22

GTGAAAAAGAGCTGGGTTGCAAGCGAGAGACGGACCTGGACACCATGTTATCAAAGTGCGATGTCGTCGTCGTGAACACGCCCTTGACGGATCAAACACGgtccgtgatc ... acgtcaacagGGGTCTGTTCAACAAGGAGCGTATTGCGAAGATGAAGAAGGGAGCTTATCTGGTGAACAACGCGCGAGGAGCCATTGCAGATACGGAGGCAGTGAAAGAA




<











<


<