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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCCAGCTTGGCCTGGAAGGGCTGTCATAGAAGACGTTAAGATCAGAAACGGTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatatactgttctggtgcatactggtccttgcataatacgttacagttccttatttcctgacaagagaatacatttgaataatctacaatgaatta...

Basic information

species Physcomitrella patens
transcript PP1S62_157V6.2
intron # 4
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|18345934|gb|BJ177977.1|BJ177977
EST:     GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|162156416|gb|FC332648.1|FC332648
EST:     GTCCGAAACCTATCTCCCTTATCGGATCTACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|162168654|gb|FC343916.1|FC343916
EST:     GTCCGAAACCTATCTCCCTTATCGGATCTACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|162179792|gb|FC356383.1|FC356383
EST:     GTCCGAAACCTATCTCCCTTATCGGATCTACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|18329065|gb|BJ161071.1|BJ161071
EST:     GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|18358713|gb|BJ190772.1|BJ190772
EST:     GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|100375682|gb|BY968157.1|BY968157
EST:     GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|18358530|gb|BJ190589.1|BJ190589
EST:     GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|18343769|gb|BJ175807.1|BJ175807
EST:     GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|18371305|gb|BJ202907.1|BJ202907
EST:     GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|162250938|gb|FC425760.1|FC425760
EST:     GTCCGAAACCTATCTCCCTTATCGGATCTACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|18326677|gb|BJ158676.1|BJ158676
EST:     GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|18346948|gb|BJ178993.1|BJ178993
EST:     GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|208352746|gb|DC905880.1|DC905880
EST:     GTCCGAAACCTATCTCCCTTATCGGATCGACTGACTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|100442899|gb|BY963394.1|BY963394
EST:     CGGATCGACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: CGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|162272851|gb|FC448007.1|FC448007
EST:     GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|162208298|gb|FC384402.1|FC384402
EST:     GTCCGAAACCTATCTCCCTTATCGGATCTACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|100379666|gb|BY949883.1|BY949883
EST:     GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|18347535|gb|BJ179582.1|BJ179582
EST:     GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
EST: gi|18363878|gb|BJ195950.1|BJ195950
EST:     GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAG                         ACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG
genomic: GTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTG

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: 35 (upstream exon), 35 (downstream exon)
Score: 32

TCCAGCTTGGCCTGGAAGGGCTGTCATAGAAGACGTTAAGATCAGAAACGGTCCGAAACCTATCTCCCTTATCGGATCGACTGGCTCTATCGGTACACAGgtgacatata ... tgtgttgtagACCCTCGACATTGTCGCCGAAAATCCGAATAAATTCAAGGTCGTGGCTTTGGCTGCTGGTTCCAATGTCAGCTTGTTGGCTGAACAG




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