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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagacgtcattttgcatcatcattggcttcggctgtgcagcattacatttttgctacatgtttccttcgatgaagtaatcgtattgtcccgaatgaatgttaccttgttggttccatgtagcacccgaaacttctcgtgttctcccgtcactcattaaaatgtttgtcgtgcagTACGTCTGCACCAGCAACTACCACTGGCCTATC

Basic information

species Physcomitrella patens
transcript PP1S58_148V6.4
intron # 4
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|67718017|gb|BJ968276.1|BJ968276
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|162200956|gb|FC377359.1|FC377359
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|208368341|gb|DC935682.1|DC935682
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|100371545|gb|BY968032.1|BY968032
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|67718144|gb|BJ968403.1|BJ968403
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|67718550|gb|BJ968809.1|BJ968809
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|100369047|gb|BY984997.1|BY984997
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|100439827|gb|BY980259.1|BY980259
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|18342937|gb|BJ174973.1|BJ174973
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|67716636|gb|BJ966896.1|BJ966896
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|67718192|gb|BJ968451.1|BJ968451
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|67702885|gb|BJ963118.1|BJ963118
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|162158680|gb|FC335047.1|FC335047
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|162261438|gb|FC438274.1|FC438274
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|67717915|gb|BJ968174.1|BJ968174
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|100440952|gb|BY962440.1|BY962440
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|162150756|gb|FC327028.1|FC327028
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|208390566|gb|DC937498.1|DC937498
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
EST: gi|208389212|gb|DC933240.1|DC933240
EST:     CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT
genomic: CAGGAACCACCCAGGCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCT

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: 30 (upstream exon), 25 (downstream exon)
Score: 10

GCACCTGCTCCCGTGGCCGCTGCTACCCCTCCTGCACCTGCGCGGAGTCCTGCCACTCCATCACCTCCGACCCCGGCCACACCTGCTCCgtaagacgtc ... tgtcgtgcagTACGTCTGCACCAGCAACTACCACTGGCCTATC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agcacccgaaacttctcgtgttctcccgtcactcattaaaatgtttgtcgtgcagTACGTCTGCACCAGCAACTACCACTGGCCTATC
                                tcattaaaatgttt  TA-rich tract