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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtcctcgtttgagtaagacggtgtcatatacattttgagacgagtgttttacttcaaagtcgcgctattgtggtctaacatgaatgtggtgggctgcagCGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGCTGAAAATTTGAAGAACCAAGAGGCTATTGGAAAGTCGGATCCTTACGTT

Basic information

species Physcomitrella patens
transcript PP1S62_94V6.3
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|162156039|gb|FC332206.1|FC332206
EST:     CCTCACAGAATTGTACTTCCTGTTGGAGACACTCCTGCGAACGTTATAAG                         CGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGC
genomic: CCTCACAGAATTGTACTTCCTGTTGGAGACACTCCTGCGAACGTTATAAGgtggtcttct ... tgggctgcagCGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGC
EST: gi|162172367|gb|FC348308.1|FC348308
EST:     CCTCACAGAATTGTACTTCCTGTTGGAGACACTCCTGCGAACGTTATAAG                         CGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGC
genomic: CCTCACAGAATTGTACTTCCTGTTGGAGACACTCCTGCGAACGTTATAAGgtggtcttct ... tgggctgcagCGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGC
EST: gi|162251728|gb|FC427460.1|FC427460
EST:     CCTCACAGAATTGTACTTCCTGTTGGAGACACTCCTGCGAACGTTATAAG                         CGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGC
genomic: CCTCACAGAATTGTACTTCCTGTTGGAGACACTCCTGCGAACGTTATAAGgtggtcttct ... tgggctgcagCGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGC
EST: gi|162251336|gb|FC427978.1|FC427978
EST:     CCTCACAGAATTGTACTTCCTGTTGGAGACACTCCTGCGAACGTTATAAG                         CGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGC
genomic: CCTCACAGAATTGTACTTCCTGTTGGAGACACTCCTGCGAACGTTATAAGgtggtcttct ... tgggctgcagCGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGC
EST: gi|100367410|gb|BY984691.1|BY984691
EST:     CCTCACAGAATTGTACTTCCTGTTGGAGACACTCCTGCGAACGTTATAAG                         CGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGC
genomic: CCTCACAGAATTGTACTTCCTGTTGGAGACACTCCTGCGAACGTTATAAGgtggtcttct ... tgggctgcagCGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGC
EST: gi|162251335|gb|FC427977.1|FC427977
EST:     TGCGAACGTTATAAG                         CGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGC
genomic: TGCGAACGTTATAAGgtggtcttct ... tgggctgcagCGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGC
EST: gi|162268968|gb|FC445460.1|FC445460
EST:     CCTCACAGAATTGTACTTCCTGTTGGAGACACTCCTGCGAACGTTATAAG                         CGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGC
genomic: CCTCACAGAATTGTACTTCCTGTTGGAGACACTCCTGCGAACGTTATAAGgtggtcttct ... tgggctgcagCGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGC
EST: gi|162153177|gb|FC329583.1|FC329583
EST:     CCTCACAGAATTGTACTTCCTGTTGGAGACACTCCTGCGAACGTTATAAG                         CGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGC
genomic: CCTCACAGAATTGTACTTCCTGTTGGAGACACTCCTGCGAACGTTATAAGgtggtcttct ... tgggctgcagCGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgttttacttcaaagtcgcgctattgtggtctaacatgaatgtggtgggctgcagCGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGCTGAAAATTTGAAGAACCAAGAGGCTATTGGAAAGTCGGATCCTTACGTT
                            gtctaac  putative branch site (score: 2)
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgtcctcgtttgagtaagacggtgtcatatacattttgagacgagtgttttacttcaaagtcgcgctattgtggtctaacatgaatgtggtgggctgcagCGATCTGGGATTAAAGCCCCAAGGCCAGTTGAAGGTCACCGTTGTGAAGGCTGAAAATTTGAAGAACCAAGAGGCTATTGGAAAGTCGGATCCTTACGTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG