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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attctatgttttctggagttttggatctcctagaggattctcatatttctctttttttttttttgttggtatacagctttactgttctgtacttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTACATTGAGCAATACGAAGCTGATCCTGCCAAGATATTCGAACCCTCTGCCG

Basic information

species Physcomitrella patens
transcript PP1S4_12V6.2
intron # 17
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|37829340|gb|BJ587352.1|BJ587352
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162276462|gb|FC452465.1|FC452465
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|18341150|gb|BJ173183.1|BJ173183
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|18338573|gb|BJ170597.1|BJ170597
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162184967|gb|FC362413.1|FC362413
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162187300|gb|FC363458.1|FC363458
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162184968|gb|FC362414.1|FC362414
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|208382001|gb|DC923846.1|DC923846
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162206764|gb|FC383237.1|FC383237
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|67725611|gb|BJ975870.1|BJ975870
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162206765|gb|FC383238.1|FC383238
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|37850179|gb|BJ608187.1|BJ608187
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162257952|gb|FC433838.1|FC433838
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162175774|gb|FC352076.1|FC352076
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTTTCGGCTG                         GTGTTCCGTCTCTTTGGAACTGGTTCAGTGGGCGCTACGATTTGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162178505|gb|FC354957.1|FC354957
EST:     ATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: ATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162178864|gb|FC354796.1|FC354796
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|67692041|gb|BJ952274.1|BJ952274
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|37828076|gb|BJ586088.1|BJ586088
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGCCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162159186|gb|FC334357.1|FC334357
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162196533|gb|FC374420.1|FC374420
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162185023|gb|FC362469.1|FC362469
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|67693718|gb|BJ953951.1|BJ953951
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162263231|gb|FC439052.1|FC439052
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTC-AGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|67727198|gb|BJ977457.1|BJ977457
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|67695071|gb|BJ955304.1|BJ955304
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162231044|gb|FC406155.1|FC406155
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162180376|gb|FC355797.1|FC355797
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
EST: gi|162263230|gb|FC439051.1|FC439051
EST:     TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTG                         GTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC
genomic: TATCCAGCCACCAGGGTATCCGCTACCTGTTCAAGGATGGTTCTCGGCTGgtgcgtttct ... acttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttctctttttttttttttgttggtatacagctttactgttctgtacttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTACATTGAGCAATACGAAGCTGATCCTGCCAAGATATTCGAACCCTCTGCCG
      tttttttttttttgtt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attctatgttttctggagttttggatctcctagaggattctcatatttctctttttttttttttgttggtatacagctttactgttctgtacttgtgtagGTGTTCCGTCTCTCTGGAACTGGTTCAGTGGGCGCTACGATTCGTCTGTACATTGAGCAATACGAAGCTGATCCTGCCAAGATATTCGAACCCTCTGCCG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT