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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atacacacacacactcatatatatctctctctctacatatatatatatatatatatatatagattacaaattcactggaaaggtggattgttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTACCTGTTGTGCCGAATCAGAATTGGAATAGCGTGGCTGGGTCAAAAGTGC

Basic information

species Physcomitrella patens
transcript PP1S42_193V6.4
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|67570570|gb|BJ943394.1|BJ943394
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|100383515|gb|BY950299.1|BY950299
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|100356373|gb|BY946332.1|BY946332
EST:     TCCTTGGGGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|100360321|gb|BY966113.1|BY966113
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|100352263|gb|BY983120.1|BY983120
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|100399937|gb|BY990696.1|BY990696
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|162261958|gb|FC436817.1|FC436817
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|18331554|gb|BJ163565.1|BJ163565
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|100354646|gb|BY983494.1|BY983494
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|18326322|gb|BJ158321.1|BJ158321
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|100353033|gb|BY945573.1|BY945573
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGAATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|18325080|gb|BJ157076.1|BJ157076
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|100389903|gb|BY971255.1|BY971255
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|208380333|gb|DC907658.1|DC907658
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|18370446|gb|BJ202048.1|BJ202048
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|208357746|gb|DC902298.1|DC902298
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|100372888|gb|BY948750.1|BY948750
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|19780598|gb|BQ039579.1|BQ039579
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|18369243|gb|BJ201328.1|BJ201328
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|100441557|gb|BY980979.1|BY980979
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|208399184|gb|DC912427.1|DC912427
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|67573736|gb|BJ946560.1|BJ946560
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|67570680|gb|BJ943504.1|BJ943504
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|100429179|gb|BY977979.1|BY977979
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|67571017|gb|BJ943841.1|BJ943841
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|100353317|gb|BY964745.1|BY964745
EST:     GGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: GGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|18325457|gb|BJ157454.1|BJ157454
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
EST: gi|162258694|gb|FC434389.1|FC434389
EST:     TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCG                         AAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA
genomic: TCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTA

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: 27 (upstream exon), 34 (downstream exon)
Score: 6

CCGCCGAGGATCCTTGGCTTCGCCGCAAGCGACGAGAGGCAGCGGCCTTTTCCTTGGAGATAGAAATTGGAGGCAACGGAGAGGACCGCTAGCGCGACCGgtatgttttg ... ttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTACCTGTTGTGCCGAATCAGAATTGGAATAGCGTGGCTGGGTCAAAAGTGC




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatatatatatatatagattacaaattcactggaaaggtggattgttgtttgcagAAATGTGCGCTAGCGGATTCCTCAGTATCCTGGAATGGAAGGCCAGTAGTACCTGTTGTGCCGAATCAGAATTGGAATAGCGTGGCTGGGTCAAAAGTGC
     atatatatatagatta  TA-rich tract