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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaatgtagcataaagatttttaattttcttgtgaccattgttattgctttagaatatttaaagaaaaacatcaacagctggtttttattgactccttcagATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTTGGTGTGCCGATG

Basic information

species Physcomitrella patens
transcript PP1S93_96V6.1
intron # 6
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|208387236|gb|DC945535.1|DC945535
EST:     TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAG                         ATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
genomic: TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAGgtagtcattc ... actccttcagATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
EST: gi|208355402|gb|DC949868.1|DC949868
EST:     TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAG                         ATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
genomic: TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAGgtagtcattc ... actccttcagATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
EST: gi|162205376|gb|FC382085.1|FC382085
EST:     TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAG                         ATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
genomic: TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAGgtagtcattc ... actccttcagATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
EST: gi|162212065|gb|FC388175.1|FC388175
EST:     TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAG                         ATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
genomic: TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAGgtagtcattc ... actccttcagATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
EST: gi|67699739|gb|BJ959972.1|BJ959972
EST:     TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAG                         ATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
genomic: TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAGgtagtcattc ... actccttcagATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
EST: gi|18336346|gb|BJ168368.1|BJ168368
EST:     TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAG                         ATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
genomic: TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAGgtagtcattc ... actccttcagATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
EST: gi|162250136|gb|FC427445.1|FC427445
EST:     TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAG                         ATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
genomic: TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAGgtagtcattc ... actccttcagATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
EST: gi|162156407|gb|FC332639.1|FC332639
EST:     TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAG                         ATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
genomic: TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAGgtagtcattc ... actccttcagATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
EST: gi|162156408|gb|FC332640.1|FC332640
EST:     TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAG                         ATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT
genomic: TCCATTCATTGGGACTAGAGAAATACGTAGCCACGTTTCAATCTGAGGAGgtagtcattc ... actccttcagATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctttagaatatttaaagaaaaacatcaacagctggtttttattgactccttcagATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTTGGTGTGCCGATG
                                        tattgac  putative branch site (score: 2)
                                              ctccttc  CT-rich tract
       aatatttaaagaaaaa  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaatgtagcataaagatttttaattttcttgtgaccattgttattgctttagaatatttaaagaaaaacatcaacagctggtttttattgactccttcagATTGATATGGCTGCCCTTGGGCACATGAGTGACAATGATCTTAAGGAACTTGGTGTGCCGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA