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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttacactttgtataaccctgaggttttcgtaaagataatcgacccctgttttatgactaattactatttcgaataacgtgaatccccgtttccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGATGGCAAGTTCAAAG

Basic information

species Physcomitrella patens
transcript PP1S77_67V6.2
intron # 2
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|162219804|gb|FC396216.1|FC396216
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|208389722|gb|DC933624.1|DC933624
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|208348492|gb|DC913206.1|DC913206
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|18331833|gb|BJ163845.1|BJ163845
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|162202569|gb|FC380058.1|FC380058
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|162188510|gb|FC365108.1|FC365108
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|162198662|gb|FC373456.1|FC373456
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|100429290|gb|BY978036.1|BY978036
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|162211311|gb|FC387541.1|FC387541
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|162208267|gb|FC384371.1|FC384371
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|100429105|gb|BY977942.1|BY977942
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|100379454|gb|BY986645.1|BY986645
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|67576818|gb|BJ949642.1|BJ949642
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|208351671|gb|DC905778.1|DC905778
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|67572807|gb|BJ945631.1|BJ945631
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|67569405|gb|BJ942229.1|BJ942229
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|162170772|gb|FC347386.1|FC347386
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|162279647|gb|FC455893.1|FC455893
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|100425505|gb|BY958629.1|BY958629
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|18332077|gb|BJ164089.1|BJ164089
EST:     CTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: CTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|162222137|gb|FC397365.1|FC397365
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|162210263|gb|FC386735.1|FC386735
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|162152926|gb|FC329228.1|FC329228
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|162228235|gb|FC404951.1|FC404951
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|100386144|gb|BY970083.1|BY970083
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|100397597|gb|BY990306.1|BY990306
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|18346422|gb|BJ178465.1|BJ178465
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|100398476|gb|BY972627.1|BY972627
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|18327599|gb|BJ159602.1|BJ159602
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|162149978|gb|FC326509.1|FC326509
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|162218807|gb|FC394350.1|FC394350
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|67570902|gb|BJ943726.1|BJ943726
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|22491898|gb|BU051821.1|BU051821
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|162154996|gb|FC331414.1|FC331414
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|100422641|gb|BY976475.1|BY976475
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|100383766|gb|BY969295.1|BY969295
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
EST: gi|18348189|gb|BJ180236.1|BJ180236
EST:     AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTG                         GAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA
genomic: AAAGGTTTTAGAAATTGGCCGTGTTCGGATTTATCAGAGCTTGAGCACTGgtatggcgtt ... tccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctgttttatgactaattactatttcgaataacgtgaatccccgtttccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGATGGCAAGTTCAAAG
                         gaataac  putative branch site (score: 2)
                                     tccccgtttccttctc  putative PPT
          actaattactattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttacactttgtataaccctgaggttttcgtaaagataatcgacccctgttttatgactaattactatttcgaataacgtgaatccccgtttccttctcagGAATCAAAACACTCAAATCAGGACCAAAGCCGGCAAAGGGCTGTATCCGGATGGCAAGTTCAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG