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'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaattggagcggtgtagaagtttatgaggaacttttcggttggttcctgggacccagacacagggacaataggttttccccgtgcattcctttacttgtgtagaaaaactgcgttttcctaacttgttgtttttcagattgttaattattcgcatgaaaattgatattgcgggtattctgttttccccgaaacagGATAACAATTTGGTTGTACGGACGTGGGGGACTCCGAGAGACCAATCAGGCCTTGTGAACCATGTAGATCTTGTGAATAAATTGGGCATTGTTGATCTTG

Basic information

species Physcomitrella patens
transcript PP1S13_192V6.2
intron # 1
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|18373035|gb|BJ204637.1|BJ204637
EST:     GGTTGGTTGGTAACTTGGTTCATGATTCCGTGCCTATAGACAACAACGAG                         GATAACAATTTTGGTTGTAC
genomic: GGTTGGTTGGTAACTTGGTTCATGATTCCGTGCCTATAGACAACAACGAGgtaaaattgg ... cccgaaacagGATAACAATTT-GGTTGTAC
EST: gi|162275691|gb|FC451368.1|FC451368
EST:     GGTTGGTTGGTAACTTGGTTCATGATTCCGTGCCTATAGACAACAACGAG                         GATAACAATTTGGTTGTACGGACGTGGGGGACTCCGAGAGACCAATCAGGC
genomic: GGTTGGTTGGTAACTTGGTTCATGATTCCGTGCCTATAGACAACAACGAGgtaaaattgg ... cccgaaacagGATAACAATTTGGTTGTACGGACGTGGGGGACTCCGAGAGACCAATCAGGC
EST: gi|100443625|gb|BY963722.1|BY963722
EST:     GGTTGGTTGGTAACTTGGTTCATGATTCCGTGCCTATAGACAACAACGAG                         GATAACAATTTGGTTGTACGGACGTGGGGGGACTCCGAGAGACCAATCAGG
genomic: GGTTGGTTGGTAACTTGGTTCATGATTCCGTGCCTATAGACAACAACGAGgtaaaattgg ... cccgaaacagGATAACAATTTGGTTGTACGGACGTGGGGG-ACTCCGAGAGACCAATCAGG
EST: gi|100444896|gb|BY982724.1|BY982724
EST:     GGTTGGTTGGTAACTTGGTTCATGATTCCGTGCCTATAGACAACAACGAG                         GATAACAATTTGGTTGTACGGACGTGGGGGACTCCGAGAGACCAATCAGGC
genomic: GGTTGGTTGGTAACTTGGTTCATGATTCCGTGCCTATAGACAACAACGAGgtaaaattgg ... cccgaaacagGATAACAATTTGGTTGTACGGACGTGGGGGACTCCGAGAGACCAATCAGGC

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: 34 (upstream exon), 24 (downstream exon)
Score: 5

CAAGGAGAAGGAGACTGCGGAGTGCAAGGTGGCCATGGAGGCTAGCCTGCGGTTGGTTGGTAACTTGGTTCATGATTCCGTGCCTATAGACAACAACGAGgtaaaattgg ... cccgaaacagGATAACAATTTGGTTGTACGGACGTGGGGGACTCCGAGAGACCAATCAGGCCTTGTGAACCATGTAGATCTTGTGAATAAATTGGGCATTGTTGATCTTG




<











<


<











 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttaattattcgcatgaaaattgatattgcgggtattctgttttccccgaaacagGATAACAATTTGGTTGTACGGACGTGGGGGACTCCGAGAGACCAATCAGGCCTTGTGAACCATGTAGATCTTGTGAATAAATTGGGCATTGTTGATCTTG
                                 tattctgttttcccc  CT-rich tract
             atgaaaattgatatt  TA-rich tract