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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAGgttaatttttgatttctagactggacctttttcttctgcattcgtcatggacagggtaaacgattttaagttgggtcaagcctcaaggaagtcatgctgagctttgcaagagattgtggccgggagtataattgacgttttttacgctttggttatgctgcag

Basic information

species Physcomitrella patens
transcript PP1S83_162V6.1
intron # 3
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|18329713|gb|BJ161719.1|BJ161719
EST:     GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAG                         GAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT
genomic: GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAGgttaattttt ... tatgctgcagGAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT
EST: gi|208347445|gb|DC909752.1|DC909752
EST:     GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAG                         GAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGC-TT
genomic: GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAGgttaattttt ... tatgctgcagGAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT
EST: gi|162240627|gb|FC419365.1|FC419365
EST:     GGTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAG                         GAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT
genomic: GGTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAGgttaattttt ... tatgctgcagGAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT
EST: gi|18372591|gb|BJ204193.1|BJ204193
EST:     GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAG                         GAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT
genomic: GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAGgttaattttt ... tatgctgcagGAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT
EST: gi|18356123|gb|BJ188182.1|BJ188182
EST:     GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAG                         GAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT
genomic: GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAGgttaattttt ... tatgctgcagGAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT
EST: gi|18354019|gb|BJ186074.1|BJ186074
EST:     GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAG                         GAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGGTGTGCTT
genomic: GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAGgttaattttt ... tatgctgcagGAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGG-TGTGCTT
EST: gi|18349502|gb|BJ181551.1|BJ181551
EST:     GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAG                         GAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT
genomic: GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAGgttaattttt ... tatgctgcagGAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT
EST: gi|162150536|gb|FC326392.1|FC326392
EST:     GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAG                         GAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT
genomic: GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAGgttaattttt ... tatgctgcagGAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT
EST: gi|18349065|gb|BJ181114.1|BJ181114
EST:     GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAG                         GAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT
genomic: GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAGgttaattttt ... tatgctgcagGAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT
EST: gi|18345693|gb|BJ177736.1|BJ177736
EST:     GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAG                         GAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT
genomic: GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAGgttaattttt ... tatgctgcagGAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTT

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), 24 (downstream exon)
Score: 3

GTAGTCTTGATGGCCTTTGAATGTCCGCACTGCAACGAAAGgttaattttt ... tatgctgcagGAATAACGAAGTTCAGTTCGCTGGCCAATTGCAACCGCAGGGGTGTGCTTTTACACTGACAGTTCCAGCAGGAGAACCAGAG




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