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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgattcttcttcgctttttattactttggagttttttttcagtgtttatccttgtgctctttcattatcatgaatggatgagaagattctgtcacatatactgaatgtcgaactgaggattaaacagGTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAATCAG

Basic information

species Physcomitrella patens
transcript PP1S72_188V6.2
intron # 10
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|162153696|gb|FC329099.1|FC329099
EST:     TGACAAACATTCAGAAGGATCTTAATGGCATGTACCAATACTTCATTAAG                         GTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAAT
genomic: TGACAAACATTCAGAAGGATCTTAATGGCATGTACCAATACTTCATTAAGgtgattcttc ... gattaaacagGTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAAT
EST: gi|162155187|gb|FC331683.1|FC331683
EST:     TGACAAACATTCAGAAGGATCTTAATGGCATGTACCAATACTTCATTAAG                         GTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAAT
genomic: TGACAAACATTCAGAAGGATCTTAATGGCATGTACCAATACTTCATTAAGgtgattcttc ... gattaaacagGTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAAT
EST: gi|162153697|gb|FC329100.1|FC329100
EST:     TGACAAACATTCAGAAGGATCTTAATGGCATGTACCAATACTTCATTAAG                         GTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAAT
genomic: TGACAAACATTCAGAAGGATCTTAATGGCATGTACCAATACTTCATTAAGgtgattcttc ... gattaaacagGTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAAT
EST: gi|18332622|gb|BJ164635.1|BJ164635
EST:     TGACAAACATTCAGAAGGATCTTAATGGCATGTACCAATACTTCATTAAG                         GTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAAT
genomic: TGACAAACATTCAGAAGGATCTTAATGGCATGTACCAATACTTCATTAAGgtgattcttc ... gattaaacagGTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAAT
EST: gi|208373960|gb|DC944693.1|DC944693
EST:     TGACAAACATTCAGAAGGATCTTAATGGCATGTACCAATACTTCATTAAG                         GTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAAT
genomic: TGACAAACATTCAGAAGGATCTTAATGGCATGTACCAATACTTCATTAAGgtgattcttc ... gattaaacagGTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAAT
EST: gi|37841040|gb|BJ599048.1|BJ599048
EST:     TGACAAACATTCAGAAGGATCTTAATGGCATGTACCAATACTTCATTAAG                         GTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAAT
genomic: TGACAAACATTCAGAAGGATCTTAATGGCATGTACCAATACTTCATTAAGgtgattcttc ... gattaaacagGTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAAT
EST: gi|208374836|gb|DC956109.1|DC956109
EST:     TGACAAACATTCAGAAGGATCTTAATGGCATGTACCAATACTTCATTAAG                         GTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAAT
genomic: TGACAAACATTCAGAAGGATCTTAATGGCATGTACCAATACTTCATTAAGgtgattcttc ... gattaaacagGTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aatggatgagaagattctgtcacatatactgaatgtcgaactgaggattaaacagGTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAATCAG
                                              attaaaca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgattcttcttcgctttttattactttggagttttttttcagtgtttatccttgtgctctttcattatcatgaatggatgagaagattctgtcacatatactgaatgtcgaactgaggattaaacagGTGGTGCCTACAGTGTACACTGATATTAAGGGTCGCAAGATTTCAACTAATCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA