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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttttaaaagttgattacgtacttttcacttcatcttattttgaattcttcgtgtttagggaagaggtatttctttgaccttctgtgttcgtttagtacagCTACCACATTGACAAGCTGGCATCTAGCGGTGACATTCTGCTCACTTCACGTTGCACGATCATTGAAACTATTTGAGCACAAGCCTTTCGACTCACGGAC

Basic information

species Physcomitrella patens
transcript PP1S123_22V6.1
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S123_22V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: Vv13s0067g02970.t01 (Vitis vinifera), 3'ss of exon 3
--ttttaaaagttgattacgtacttttcact-tcatcttat-tttgaattcttcgtgtttagggaagaggtatt-tctttgaccttctgtgttcgtttagtacagCTACCACATTGACAAGCTGGCATCTAGCGGTGACATTCTGCTCACTTCACGTTGCACGATCATTGAAACTATTTGAGCACAAGCCTTTCGACTCACGGAC
  | |||   | | |  | | |||    |   | ||  |||  ||  ||      || ||      | || ||| ||||    | || || || ||     |||||||| ||||||||||||||||||||   ||| || ||||| || ||||| || || | ||   ||||| | ||||| ||||| || || ||  ||    |
gctattaggcggtaacaaagcactaactataatgattgtatactttgataagatttgcttctacttgtggcattatcttctgtcatccgtctttgt-----acagCTACTACATTGACAAGCTGGCATCTTCTGGTCACTTTCTGTTCTCTTCATGTGGCTCTATGGATGAAATTGTTTGAACACAAACCATTTGATGCAAAAGC
















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|18344390|gb|BJ176430.1|BJ176430
EST:     CATCGTTATTTGCAACAAGACGCTCATCACTACGCTCGGTTTCTGCTTCG                         CTACCACATTGACAAGCTGGCATCTAGCGGTGACATTCTGCTCACTTCACG
genomic: CATCGTTATTTGCAACAAGACGCTCATCACTACGCTCGGTTTCTGCTTCGgtacgaggaa ... tttagtacagCTACCACATTGACAAGCTGGCATCTAGCGGTGACATTCTGCTCACTTCACG
EST: gi|162195419|gb|FC369835.1|FC369835
EST:     CATCGTTATTTGCAACAAGACGCTCATCACTATGCTCGGTTTCTGCTTCG                         CTACCACATTGACAAGCTGGCATCTAGCGGTGACATTCTGCTCACTTCACG
genomic: CATCGTTATTTGCAACAAGACGCTCATCACTACGCTCGGTTTCTGCTTCGgtacgaggaa ... tttagtacagCTACCACATTGACAAGCTGGCATCTAGCGGTGACATTCTGCTCACTTCACG
EST: gi|67569132|gb|BJ941956.1|BJ941956
EST:     CATCGTTATTTGCAACAAGACGCTCATCACTACGCTCGGTTTCTGCTTCG                         CTACCACATTGACAAGCTGGCATCTAGCGGTGACATTCTGCTCACTTCACG
genomic: CATCGTTATTTGCAACAAGACGCTCATCACTACGCTCGGTTTCTGCTTCGgtacgaggaa ... tttagtacagCTACCACATTGACAAGCTGGCATCTAGCGGTGACATTCTGCTCACTTCACG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcttcgtgtttagggaagaggtatttctttgaccttctgtgttcgtttagtacagCTACCACATTGACAAGCTGGCATCTAGCGGTGACATTCTGCTCACTTCACGTTGCACGATCATTGAAACTATTTGAGCACAAGCCTTTCGACTCACGGAC
                          ctttgac  putative branch site (score: 4)
                                         ttcgttt  putative PPT
                     tatttcttt  TA-rich tract