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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatttgccctcagcgtgaacagacagaaaattagtcatttttttcattttttcagtgtaactgattaaagtactacgtaatgcacttctatttggctgtagcgagcacatttcgttttatttttaaaatgaaaaaatctttacacgttctatgatgctattattcaactataaagttattgttccatgtacagGTGTCACAAAATGCATTGAAGTACCAGCAAGAATGCTGGCGACCGGTTCTTCAGCATCTCAGCCGTGAAGGGCTTACGGGTTCTGGATCAAGCAAGGGAC

Basic information

species Physcomitrella patens
transcript PP1S97_91V6.2
intron # 6
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|162166128|gb|FC342578.1|FC342578
EST:     AAATCGGACCGCTGTTGGGCGAAGACTTGATGTCAGGGATCGGCCGCAAG                         GTGTCACAAAATGCATTGAAGTACCAGCAAGAATGCTGGCGACCGGTTCTT
genomic: AAATCGGACCGCTGTTGGGCGAAGACTTGATGTCAGGGATCGGCCGCAAGgtatttgccc ... ccatgtacagGTGTCACAAAATGCATTGAAGTACCAGCAAGAATGCTGGCGACCGGTTCTT
EST: gi|67693739|gb|BJ953972.1|BJ953972
EST:     AAATCGGACCGCTGTTGGGCGAAGACTTGATGTCAGGGATCGGCCGCAAG                         GTGTCACAAAATGCATTGAAGTACCAGCAAGAATGCTGGCGACCGGTTCTT
genomic: AAATCGGACCGCTGTTGGGCGAAGACTTGATGTCAGGGATCGGCCGCAAGgtatttgccc ... ccatgtacagGTGTCACAAAATGCATTGAAGTACCAGCAAGAATGCTGGCGACCGGTTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttacacgttctatgatgctattattcaactataaagttattgttccatgtacagGTGTCACAAAATGCATTGAAGTACCAGCAAGAATGCTGGCGACCGGTTCTTCAGCATCTCAGCCGTGAAGGGCTTACGGGTTCTGGATCAAGCAAGGGAC
                                        ttgttcc  CT-rich tract
                   tattattcaactataa  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
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatttgccctcagcgtgaacagacagaaaattagtcatttttttcattttttcagtgtaactgattaaagtactacgtaatgcacttctatttggctgtagcgagcacatttcgttttatttttaaaatgaaaaaatctttacacgttctatgatgctattattcaactataaagttattgttccatgtacagGTGTCACAAAATGCATTGAAGTACCAGCAAGAATGCTGGCGACCGGTTCTTCAGCATCTCAGCCGTGAAGGGCTTACGGGTTCTGGATCAAGCAAGGGAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG