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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TGTGCGTGATTCTGCAGGAATTAAGCTTGATGGGAGCAGCAAAGATAAGAATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAGgtacgaattctttgcttgcgtttacaatatggtatcatcaagaatcataaaaatccttggtacacatcgtttagtttcttgaagtagatttggtaggataaatttgatatgtataccctttcttatcctcaacacgacacgtgcttcgtgttttcag

Basic information

species Physcomitrella patens
transcript PP1S45_86V6.1
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|100362458|gb|BY947367.1|BY947367
EST:     ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAG                         ATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
genomic: ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAGgtacgaattc ... gtgttttcagATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
EST: gi|162258363|gb|FC434914.1|FC434914
EST:     ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAG                         ATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
genomic: ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAGgtacgaattc ... gtgttttcagATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
EST: gi|100425613|gb|BY958683.1|BY958683
EST:     TTTGCTCATTACAGCAGCTTCCGGGAG-TGTAGGCACCTATGCTGTTCAG                         ATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
genomic: TTTGCTCATTACAGCAGCTTCCGG-AGGTGTAGGCACCTATGCTGTTCAGgtacgaattc ... gtgttttcagATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
EST: gi|100422238|gb|BY957925.1|BY957925
EST:     TTTGCTCATTACAGCAGCTTCCGGGAG-TGTAGGCACCTATGCTGTTCAG                         ATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
genomic: TTTGCTCATTACAGCAGCTTCCGG-AGGTGTAGGCACCTATGCTGTTCAGgtacgaattc ... gtgttttcagATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
EST: gi|162258364|gb|FC434915.1|FC434915
EST:     ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAG                         ATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
genomic: ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAGgtacgaattc ... gtgttttcagATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
EST: gi|100418702|gb|BY975699.1|BY975699
EST:     TTTGCTCATTACAGCAGCTTCCGGGAG-TGTAGGCACCTATGCTGTTCAG                         ATTTGCTAA-CTGGGAGGTG
genomic: TTTGCTCATTACAGCAGCTTCCGG-AGGTGTAGGCACCTATGCTGTTCAGgtacgaattc ... gtgttttcagATT-GCTAAACTGGGAGGTG
EST: gi|208391431|gb|DC937579.1|DC937579
EST:     ATTTGCTCATTACAGCAGCTTCCGGAAGTGTAGGCACCTATGCTGTTCAG                         ATTGCTAAACTGGGANGTGCACACGTGACAGCTACACGCGGAGCT
genomic: ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAGgtacgaattc ... gtgttttcagATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCT
EST: gi|162212925|gb|FC388933.1|FC388933
EST:     ATTTGCTCATTACAGCAGCTTCNGGAGGTGTAGGCACCTATGCTGTTCAG                         ATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
genomic: ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAGgtacgaattc ... gtgttttcagATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
EST: gi|208374474|gb|DC941203.1|DC941203
EST:     ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAG                         ATTGCTAAACTGGGANGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
genomic: ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAGgtacgaattc ... gtgttttcagATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
EST: gi|100397599|gb|BY990307.1|BY990307
EST:     ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAG                         ATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
genomic: ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAGgtacgaattc ... gtgttttcagATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
EST: gi|208364343|gb|DC950644.1|DC950644
EST:     TTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGGCACCTATGCTGTTCAG                         ATTGCTAAACTGGGAGGTGCACACGTGACAGCTACACGCGGAGCTCGCAAT
genomic: TTTGCTCATTACAGCAGCTTCCGGAGGTGTA-GGCACCTATGCTGTTCAGgtacgaattc ... gtgttttcagATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
EST: gi|100392348|gb|BY953318.1|BY953318
EST:     ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAG                         ATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
genomic: ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAGgtacgaattc ... gtgttttcagATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
EST: gi|100356582|gb|BY965177.1|BY965177
EST:     ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAG                         ATTGCTAAACTG
genomic: ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAGgtacgaattc ... gtgttttcagATTGCTAAACTG
EST: gi|162212926|gb|FC388934.1|FC388934
EST:     ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAG                         ATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT
genomic: ATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAGgtacgaattc ... gtgttttcagATTGCTAAACTGGGAGGTGCACACGTGACAGCTACATGCGGAGCTCGCAAT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TGTGCGTGATTCTGCAGGAATTAAGCTTGATGGGAGCAGCAAAGATAAGAATTTGCTCATTACAGCAGCTTCCGGAGGTGTAGGCACCTATGCTGTTCAGgtacgaattctttgcttgcgtttacaatatggtatcatcaagaatcataaaaatccttggtacacatcgtttagtttcttgaagtagatttggtaggataaatttgatatgtataccctttcttatcctcaacacgacacgtgcttcgtgttttcag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT