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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gaagtttctgtaatcattggcttaaggtggggttgttcctagcgaattgtgattatgtggttatatcaattcagttaatatgaacgtttctgtgaggcagGTTCTGTGTCTGGTAGCCATGGAGAAACCTGTTTCTCTCAGCCCTGAGCATGTTCGGGATGAAAAAGTCAAG

Basic information

species Physcomitrella patens
transcript PP1S222_130V6.3
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S222_130V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GLYMA19G24250.3 (Glycine max), 3'ss of exon 9
----gaagtttctgtaatcattggcttaaggtggggttgttcctagcgaattgtgattatgtggttatatcaattcagttaatatgaacgtttctgtgagg-cagGTTCTGTGTCTGGTAGCCATGGAGAAACCTGTTTCTCTCAGCCCTGAGCATGTTCGGGATGAAAAAGTCAAG
     ||       |  | | ||   |    |    | |||| |     ||| | |   |    | || |||| |  ||||||    |  |||||   |   |||||||| ||  |||| || ||||| ||||| ||||||||||| ||||||||  |||||||||| ||||| |||
aaacaaacaccaaatgcttaatgttatccattaaa-tggttcattagacattatcagcctaatat-atgtcaaatttgttaatt---atttttctaccaactcagGTTCTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAGGCCTGAGCACATTCGGGATGAGAAAGTGAAG

upper sequence: PP1S222_130V6.2 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GLYMA16G06850.1 (Glycine max), 3'ss of exon 9
--gaagtttctgtaatcattggcttaag-gtggggttgttcctagcgaattgtgattatgtggttatatcaattcagttaatatgaacgtttctgtgaggcagGTTCTGTGTCTGGTAGCCATGGAGAAACCTGTTTCTCTCAGCCCTGAGCATGTTCGGGATGAAAAAGTCAAG
  | |    |   |  |||    |||    |    |  ||| |     ||| | |   ||  || ||  ||| |  |||   || |   |||     |  |||||||| ||  |||| || ||||| ||||| ||||||||||| ||||||||  |||||||||| ||||| |||
aagcaaacaccaaatgcataatgttatccattaaataattcattagacattatcagcctgatgt-atgccaaatttgtt--cattatttttttaccaactcagGTTCTTTGCTTGGTTGCTATGGAAAAACCAGTTTCTCTCAGGCCTGAGCACATTCGGGATGAGAAAGTGAAG
















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|162263641|gb|FC440125.1|FC440125
EST:     GATCATTCGGGACATCATCCAAAATCATCTCGTGCAG                         GTTCTGTGTCTGGTAGCCATGGAGAAACCTGTTTCTCTCAGCCCTGAGCAT
genomic: GATCATTCGGGACATCATCCAAAATCATCTCGTGCAGgtttgcacta ... tgtgaggcagGTTCTGTGTCTGGTAGCCATGGAGAAACCTGTTTCTCTCAGCCCTGAGCAT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgtgattatgtggttatatcaattcagttaatatgaacgtttctgtgaggcagGTTCTGTGTCTGGTAGCCATGGAGAAACCTGTTTCTCTCAGCCCTGAGCATGTTCGGGATGAAAAAGTCAAG
                           agttaat  putative branch site (score: 4)
                                       cgtttct  putative PPT
               ttatatcaattcagtt  TA-rich tract