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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ctctgaacgttgaattatgcattccctgttctgatactagtcttaatcgtggttgatggtcaatgcactgaacacatttgatgttatgcttggtcaacagCTGAAAACAAAGGTGAAGGATGTCATGACCACACCAGCAATCACCTTACCTGCAGACAAGGTTGTCTCTG

Basic information

species Physcomitrella patens
transcript PP1S189_99V6.1
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|100398494|gb|BY972638.1|BY972638
EST:     ACAAATGCGTTGGAGTTCTTTCCAAAAAAGATCGATCAAAA-CATCAAAT                         CTGAAAACAAAG-TGAAGGATGTCATGACCACACCA
genomic: ACAAATGCGTTGGAGTTCTTTCCAAAAAAGATCGATCAAAAACATCAAATgtcagtgatc ... tggtcaacagCTGAAAACAAAGGTGAAGGATGTCATGACCACACCA
EST: gi|162169624|gb|FC345564.1|FC345564
EST:     ACAAATGCGTTGGAGTTCTTTCCAAAAAAGATCGATCAAAAACATCAAAT                         CTGAAAACAAAGGTGAAGGATGTCATGACCACACCAGCAATCACCTTACCT
genomic: ACAAATGCGTTGGAGTTCTTTCCAAAAAAGATCGATCAAAAACATCAAATgtcagtgatc ... tggtcaacagCTGAAAACAAAGGTGAAGGATGTCATGACCACACCAGCAATCACCTTACCT
EST: gi|100439010|gb|BY961915.1|BY961915
EST:     ACAAATGCGTTGGAGTTCTTTCCAAAAAAGATCGATCAAAAACATCAAAT                         CTGAAAAACAA-GGT-AAGGGATGTCATGACCACACCAGCAATCACCTTAC
genomic: ACAAATGCGTTGGAGTTCTTTCCAAAAAAGATCGATCAAAAACATCAAATgtcagtgatc ... tggtcaacagCTGAAAA-CAAAGGTGAAGG-ATGTCATGACCACACCAGCAATCACCTTAC
EST: gi|100417562|gb|BY975543.1|BY975543
EST:     ACAAATGCGTTGGAGTTCTTTCCAAAAAAGATCGATCAAAAACATCAAAT                         CTGAAAACAAAGG
genomic: ACAAATGCGTTGGAGTTCTTTCCAAAAAAGATCGATCAAAAACATCAAATgtcagtgatc ... tggtcaacagCTGAAAACAAAGG
EST: gi|100378927|gb|BY986487.1|BY986487
EST:     ACAAATGCGTTGGAGTTCTTTCCAAAAAAGATCGATCAAAAACATCAAAT                         CTGAAAACAAAGGTGAAGGATGTCATGACCACACCAGGCA-TCACCTTAAC
genomic: ACAAATGCGTTGGAGTTCTTTCCAAAAAAGATCGATCAAAAACATCAAATgtcagtgatc ... tggtcaacagCTGAAAACAAAGGTGAAGGATGTCATGACCACACCAG-CAATCACCTTACC
EST: gi|162228632|gb|FC405452.1|FC405452
EST:     ACAAATGCGTTGGAGTTCTTTCCAAAAAAGATCGATCAAAAACATCAAAT                         CTGAAAACAAAGGTGAAGGATGTCATGACCACACCAGCAATCACCTTACCT
genomic: ACAAATGCGTTGGAGTTCTTTCCAAAAAAGATCGATCAAAAACATCAAATgtcagtgatc ... tggtcaacagCTGAAAACAAAGGTGAAGGATGTCATGACCACACCAGCAATCACCTTACCT
EST: gi|208391806|gb|DC942340.1|DC942340
EST:     ACAAATGCGTTGGAGTTCTTTCCAAAAAAGATCGATCAAAAACATCAAAT                         CTGAAAACAAAGGTGAAGGATGTCATGACCACACCAGCAATCACCTTACCT
genomic: ACAAATGCGTTGGAGTTCTTTCCAAAAAAGATCGATCAAAAACATCAAATgtcagtgatc ... tggtcaacagCTGAAAACAAAGGTGAAGGATGTCATGACCACACCAGCAATCACCTTACCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atcgtggttgatggtcaatgcactgaacacatttgatgttatgcttggtcaacagCTGAAAACAAAGGTGAAGGATGTCATGACCACACCAGCAATCACCTTACCTGCAGACAAGGTTGTCTCTG
                              atttgat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ctctgaacgttgaattatgcattccctgttctgatactagtcttaatcgtggttgatggtcaatgcactgaacacatttgatgttatgcttggtcaacagCTGAAAACAAAGGTGAAGGATGTCATGACCACACCAGCAATCACCTTACCTGCAGACAAGGTTGTCTCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgaaca