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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atacattcatactgagtcagtatcggattaagttggggaactttactgacgatttgaatacaaaatctatgaaatcattactgacatgattgtctatcagGTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACATGTAGCACAAGATATCTTCAAACTTGCCAAG

Basic information

species Physcomitrella patens
transcript PP1S479_14V6.1
intron # 12
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|22492169|gb|BU052092.1|BU052092
EST:     ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAG                         GTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
genomic: ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAGgtttatactc ... tgtctatcagGTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
EST: gi|37840765|gb|BJ598773.1|BJ598773
EST:     ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAG                         GTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
genomic: ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAGgtttatactc ... tgtctatcagGTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
EST: gi|67725923|gb|BJ976182.1|BJ976182
EST:     ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAG                         GTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
genomic: ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAGgtttatactc ... tgtctatcagGTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
EST: gi|37840181|gb|BJ598189.1|BJ598189
EST:     ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAG                         GTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
genomic: ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAGgtttatactc ... tgtctatcagGTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
EST: gi|208346034|gb|DC921279.1|DC921279
EST:     ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAG                         GTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
genomic: ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAGgtttatactc ... tgtctatcagGTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
EST: gi|162182551|gb|FC357526.1|FC357526
EST:     ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAG                         GTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
genomic: ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAGgtttatactc ... tgtctatcagGTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
EST: gi|162186778|gb|FC362814.1|FC362814
EST:     ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAG                         GTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
genomic: ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAGgtttatactc ... tgtctatcagGTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
EST: gi|18339055|gb|BJ171081.1|BJ171081
EST:     ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAG                         GTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
genomic: ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAGgtttatactc ... tgtctatcagGTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
EST: gi|162239289|gb|FC415388.1|FC415388
EST:     ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAG                         GTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
genomic: ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAGgtttatactc ... tgtctatcagGTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
EST: gi|67725390|gb|BJ975649.1|BJ975649
EST:     ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAG                         GTCCCGAAGGAGGGTTTGAACGTTCCCTTCAGGGATGGGCTTTTGAAACAT
genomic: ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAGgtttatactc ... tgtctatcagGTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
EST: gi|37840845|gb|BJ598853.1|BJ598853
EST:     ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAG                         GTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT
genomic: ACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAGgtttatactc ... tgtctatcagGTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACAT

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), 29 (downstream exon)
Score: 9

ACTGGCTTGTTGTATGACGATGAATCACTTCAAGGTGCTTTTGACATCATTAACGACTGGACAGAAAAGGAGCGTGCCATGCTCCGCAACAAGgtttatactc ... tgtctatcagGTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACATGTAGCACAAGATATCTTCAAACTTGCCAAG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgacgatttgaatacaaaatctatgaaatcattactgacatgattgtctatcagGTCCCGAAGGAGGGTTTGAATGTTCCCTTCAGGGATGGGCTTTTGAAACATGTAGCACAAGATATCTTCAAACTTGCCAAG
                                 tactgac  putative branch site (score: 9)
      atttgaatacaaaat  TA-rich tract