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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGAGAAGCACGGCCTTGAAGTTTCACAACCATCACTGGATGGTTCCCGAGGCACCACTTGGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTCACAAgtatgtggtgtgctgatatattttgagtggtgccatttatgttttcattgtaattgttcatgctaagtgtataagtgaggagcctgttttcttagagatc...

Basic information

species Physcomitrella patens
transcript PP1S129_53V6.1
intron # 9
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|162181747|gb|FC357346.1|FC357346
EST:     GGCACCACTTGGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTCACAA                         GGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
genomic: GGCACCACTTGGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTCACAAgtatgtggtg ... tattttccagGGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
EST: gi|37844061|gb|BJ602069.1|BJ602069
EST:     GGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTCACAA                         GGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
genomic: GGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTCACAAgtatgtggtg ... tattttccagGGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
EST: gi|162268144|gb|FC443822.1|FC443822
EST:     GGCACCACTTGGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTCACAA                         GGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
genomic: GGCACCACTTGGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTCACAAgtatgtggtg ... tattttccagGGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
EST: gi|37841807|gb|BJ599815.1|BJ599815
EST:     AAGCATCGGGGCGACGTTGAGGTTCACAA                         GGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
genomic: AAGCATCGGGGCGACGTTGAGGTTCACAAgtatgtggtg ... tattttccagGGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
EST: gi|37849671|gb|BJ607679.1|BJ607679
EST:     GACTAAGCATCGGGGCGACGTTGAGGTTCACAA                         GGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
genomic: GACTAAGCATCGGGGCGACGTTGAGGTTCACAAgtatgtggtg ... tattttccagGGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
EST: gi|162198683|gb|FC373464.1|FC373464
EST:     GGCACCACTTGGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTCACAA                         GGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
genomic: GGCACCACTTGGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTCACAAgtatgtggtg ... tattttccagGGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
EST: gi|162165626|gb|FC341465.1|FC341465
EST:     GGCACCACTTGGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTCACAA                         GGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
genomic: GGCACCACTTGGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTCACAAgtatgtggtg ... tattttccagGGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
EST: gi|208371453|gb|DC955789.1|DC955789
EST:     GGCACCACTTGGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTCACAA                         GGAGGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
genomic: GGCACCACTTGGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTCACAAgtatgtggtg ... tattttccagGGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
EST: gi|162165627|gb|FC341466.1|FC341466
EST:     GGCACCACTTGGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTCACAA                         GGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
genomic: GGCACCACTTGGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTCACAAgtatgtggtg ... tattttccagGGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTG
EST: gi|37827443|gb|BJ585455.1|BJ585455
EST:     GGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTTCCCAA                         GGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCT
genomic: GGGCAATGACTAAGCATCGGGGCGACGTTGAGG-TTCACAAgtatgtggtg ... tattttccagGGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCT

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: 31 (upstream exon), 31 (downstream exon)
Score: 6

TTGAGAAGCACGGCCTTGAAGTTTCACAACCATCACTGGATGGTTCCCGAGGCACCACTTGGGCAATGACTAAGCATCGGGGCGACGTTGAGGTTCACAAgtatgtggtg ... tattttccagGGAAGCAGTGGAGCATCCTGGTTGGTGTCCAGATCCGCACAAGCCTCCCTGTGCAGG




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