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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TCTGGAGGTTGGATGTGGCAGTGGTTATGTCATTACCTCACTAGCCTTGATCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAGgtattttcattctcctgtcgagtttgtttggtcagtatattgtgcactctgtagttaggatattcaattaaattccttatgttgaaactttcacttgaag...

Basic information

species Physcomitrella patens
transcript PP1S78_28V6.3
intron # 3
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|208365484|gb|DC954725.1|DC954725
EST:     CCTCGCAGATGAATGCCATGCTCAGTTTTTTCGCTACGGACATCAGTCAG                         ACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
genomic: CCTCGCAGATGAATGCCATGCTCAG-TTTTTCGCTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
EST: gi|37850124|gb|BJ608132.1|BJ608132
EST:     CGGACATCAGTCAG                         ACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
genomic: CGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
EST: gi|100405064|gb|BY991421.1|BY991421
EST:     TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAG                         ACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
genomic: TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
EST: gi|100372882|gb|BY948747.1|BY948747
EST:     TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAG                         ACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
genomic: TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
EST: gi|67573276|gb|BJ946100.1|BJ946100
EST:     TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAG                         ACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
genomic: TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
EST: gi|67696662|gb|BJ956895.1|BJ956895
EST:     TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAG                         ACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
genomic: TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
EST: gi|37823861|gb|BJ581927.1|BJ581927
EST:     TCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAG                         ACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
genomic: TCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
EST: gi|22492275|gb|BU052198.1|BU052198
EST:     TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAG                         ACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
genomic: TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
EST: gi|162193740|gb|FC371267.1|FC371267
EST:     TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAG                         ACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
genomic: TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
EST: gi|162223988|gb|FC400346.1|FC400346
EST:     TCAGTTTTTCGCTACGGACATCAGTCAG                         ACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
genomic: TCAGTTTTTCGCTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
EST: gi|100410263|gb|BY974490.1|BY974490
EST:     TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAG                         ACAGCCGCGCAGGTGAC
genomic: TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCAGGTGAC
EST: gi|7583621|gb|AW699529.1|AW699529
EST:     TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAG                         ACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
genomic: TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
EST: gi|22133203|gb|BQ827604.1|BQ827604
EST:     TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAG                         ACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
genomic: TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
EST: gi|37836037|gb|BJ594045.1|BJ594045
EST:     TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAG                         ACAGCCGCGCAGGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGC
genomic: TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCA-GGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGC
EST: gi|37826909|gb|BJ584921.1|BJ584921
EST:     CTACGGACATCAGTCAG                         ACAGCCGCGCAGGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGC
genomic: CTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCA-GGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGC
EST: gi|162156875|gb|FC333029.1|FC333029
EST:     TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAG                         ACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
genomic: TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCAGGTGACGCGTGAGACCTTATCAGCGCATGGACTCCAGGCT
EST: gi|100380393|gb|BY986677.1|BY986677
EST:     TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAG                         ACAGCCGCGCATGTGAC
genomic: TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCAGGTGAC
EST: gi|100359380|gb|BY965718.1|BY965718
EST:     TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACGTCAGTCAG                         ACAGCCGCGCAGGTGACGCGTGAGACC
genomic: TCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAGgtattttcat ... ttctcgacagACAGCCGCGCAGGTGACGCGTGAGACC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TCTGGAGGTTGGATGTGGCAGTGGTTATGTCATTACCTCACTAGCCTTGATCCTCGCAGATGAATGCCATGCTCAGTTTTTCGCTACGGACATCAGTCAGgtattttcattctcctgtcgagtttgtttggtcagtatattgtgcactctgtagttaggatattcaattaaattccttatgttgaaactttcacttgaag

- - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG