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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaacctcgaccttggtttgcgtggctctttcctggctgaattcccttttagttggcatggatcttcggcattcttgcacgttgaacatatttcagggtcgcaccatcgctcttacagtggtatacattgattttatggattctctcagGCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTAACAGGAAAAATCCCGAAAGCGCCGTCTGCAATGGAGGATGGAGATGATG

Basic information

species Physcomitrella patens
transcript PP1S46_317V6.1
intron # 3
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|162167971|gb|FC344909.1|FC344909
EST:     TCCTGCGGAGAGATTTTCCTCACGCTATGTATTGTGTCGCTGGCACACAG                         GCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
genomic: TCCTGCGGAGAGATTTTCCTCACGCTATGTATTGTGTCGCTGGCACACAGgtaaacctcg ... attctctcagGCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
EST: gi|100364030|gb|BY966291.1|BY966291
EST:     TCCTGCGGAGAGATTTTCCTCACGCTATGTATTGTGTCGCTGGCACACAG                         GCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
genomic: TCCTGCGGAGAGATTTTCCTCACGCTATGTATTGTGTCGCTGGCACACAGgtaaacctcg ... attctctcagGCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
EST: gi|100446205|gb|CJ970504.1|CJ970504
EST:     TCCTGCGGAGAGATTTTCCTCACGCTATGTATTGTGTCGCTGGCACACAG                         GCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
genomic: TCCTGCGGAGAGATTTTCCTCACGCTATGTATTGTGTCGCTGGCACACAGgtaaacctcg ... attctctcagGCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
EST: gi|18349425|gb|BJ181474.1|BJ181474
EST:     TCCTGCGGAGAGATTTTCCTCACGCTATGTATTGTGTCGCTGGCACACAG                         GCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
genomic: TCCTGCGGAGAGATTTTCCTCACGCTATGTATTGTGTCGCTGGCACACAGgtaaacctcg ... attctctcagGCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
EST: gi|100437092|gb|BY961347.1|BY961347
EST:     TCCTGCGGAGAGATTTTCCTCACGCTATGTATTGTGTCGCTGGCACACAG                         GCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
genomic: TCCTGCGGAGAGATTTTCCTCACGCTATGTATTGTGTCGCTGGCACACAGgtaaacctcg ... attctctcagGCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
EST: gi|18347848|gb|BJ179895.1|BJ179895
EST:     CCTGCGGAGAGATTTTCCTCACGCTATGTATTTGTGTCGCTGGCACACAG                         GCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
genomic: CCTGCGGAGAGATTTTCCTCACGCTATGTATT-GTGTCGCTGGCACACAGgtaaacctcg ... attctctcagGCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
EST: gi|100449341|gb|CJ973640.1|CJ973640
EST:     TCCTGCGGAGAGATTTTCCTCACGCTATGTATTGTGTCGCTGGCACACAG                         GCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
genomic: TCCTGCGGAGAGATTTTCCTCACGCTATGTATTGTGTCGCTGGCACACAGgtaaacctcg ... attctctcagGCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
EST: gi|18368862|gb|BJ200947.1|BJ200947
EST:     TCCTGCGGAGAGATTTTCCTCACGCTATGTATTGTGTCGCTGGCACACAG                         GCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
genomic: TCCTGCGGAGAGATTTTCCTCACGCTATGTATTGTGTCGCTGGCACACAGgtaaacctcg ... attctctcagGCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
EST: gi|18347049|gb|BJ179095.1|BJ179095
EST:     CCTGCGGAGAGATTTTCCTCACGCTATGTATTTGTGTCGCTGGCACACAG                         GCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA
genomic: CCTGCGGAGAGATTTTCCTCACGCTATGTATT-GTGTCGCTGGCACACAGgtaaacctcg ... attctctcagGCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agggtcgcaccatcgctcttacagtggtatacattgattttatggattctctcagGCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTAACAGGAAAAATCCCGAAAGCGCCGTCTGCAATGGAGGATGGAGATGATG
                                              ttctctc  CT-rich tract
                           tatacattgattttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaacctcgaccttggtttgcgtggctctttcctggctgaattcccttttagttggcatggatcttcggcattcttgcacgttgaacatatttcagggtcgcaccatcgctcttacagtggtatacattgattttatggattctctcagGCCGATCAACCCGGCAGCAATTCGATTGCTGTTGTGCACATGACGAATGTAACAGGAAAAATCCCGAAAGCGCCGTCTGCAATGGAGGATGGAGATGATG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGATG