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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgcatgaacccgcaatacttgttcggttatgagcagtctataatgtcttgcataacaatcttctctgacctgtgttgtatgttctggttggaaaagcagGCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTCAGTTCGATGAACGTTCCACTAGGTTATTTCACTGGATTGAAATCAACCT

Basic information

species Physcomitrella patens
transcript PP1S473_1V6.2
intron # 5
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|67694722|gb|BJ954955.1|BJ954955
EST:     CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGT                         GCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
genomic: CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGTgtaagttctt ... ggaaaagcagGCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
EST: gi|162157012|gb|FC333374.1|FC333374
EST:     CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGT                         GCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
genomic: CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGTgtaagttctt ... ggaaaagcagGCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
EST: gi|162265407|gb|FC440733.1|FC440733
EST:     CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGT                         GCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
genomic: CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGTgtaagttctt ... ggaaaagcagGCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
EST: gi|162151453|gb|FC326958.1|FC326958
EST:     CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGT                         GCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
genomic: CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGTgtaagttctt ... ggaaaagcagGCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
EST: gi|162157013|gb|FC333375.1|FC333375
EST:     CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGT                         GCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
genomic: CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGTgtaagttctt ... ggaaaagcagGCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
EST: gi|162266183|gb|FC441920.1|FC441920
EST:     CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGT                         GCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
genomic: CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGTgtaagttctt ... ggaaaagcagGCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
EST: gi|162160847|gb|FC337669.1|FC337669
EST:     CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGT                         GCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
genomic: CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGTgtaagttctt ... ggaaaagcagGCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
EST: gi|162185767|gb|FC362323.1|FC362323
EST:     CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGT                         GCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
genomic: CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGTgtaagttctt ... ggaaaagcagGCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
EST: gi|162151452|gb|FC326957.1|FC326957
EST:     CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGT                         GCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC
genomic: CTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGTgtaagttctt ... ggaaaagcagGCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTC

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), 34 (downstream exon)
Score: 8

CGGAGCAATGGAGGTTCCCAAACGAATCAGATTGGAACTTGATCTCTCCGCTACCCCACATTTTGCAGTGCGCAACCCGTCAGTAATTCATTTTTGATGTgtaagttctt ... ggaaaagcagGCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTCAGTTCGATGAACGTTCCACTAGGTTATTTCACTGGATTGAAATCAACCT




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtcttgcataacaatcttctctgacctgtgttgtatgttctggttggaaaagcagGCAGCTGCCCCTTTTTGCATTATCTTATGGCTGCTGGTGGAGTTATCCTTCAGTTCGATGAACGTTCCACTAGGTTATTTCACTGGATTGAAATCAACCT
                  ctctgac  putative branch site (score: 8)
       ataacaat  TA-rich tract