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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaagagattttcttcattctcttcaatttgctgcattgtgttcttctagcttgttagttctgtatttgatgtattattctgcgtctttttatactgtttgcttcaagcaatatttctgttgtgcagATTAATGATCGCTATGAGTTTCCACTGCAACTAGACTTGGATAGGGAGAACGGAAAGTACCTCTCTCCTGATGCCGACCGTAGTGTTCGAAATTTGTACA

Basic information

species Physcomitrella patens
transcript PP1S123_138V6.1
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: PP1S123_138V6.1 (Physcomitrella patens), 3'ss of exon 9
lower sequence: GRMZM2G551402_T02 (Zea mays), 3'ss of exon 3
----------------------------gtgaagagattttcttcattctcttca--atttgctgcattgtgttcttc--tagct-tgttagttctgtatttgatgtattattctgcgt-ctttttatactgtttgct---tcaagcaatatttctgttgtgcagATTAATGATCGCTATGAGTTTCCACTGCAACTAGACTTGGATAGGGAGAACGGAAAGTACCTCTCTCCTGATGCCGACCGTAGTGTTCGAAATTTGTACA
                                ||  || || |||||   ||| |   |   ||  ||||  || | |  ||  |    |   |||  ||   || |||| |    | |  | |||||  || |||     || |  |||| ||   |||  ||||||||||||||||||||||| || |||||||| ||  ||||||| ||    || || ||| |  ||||  |||| || || |||   |||||  | ||||
gtttgttctgataacttgcacttcgttcagttagttatattgttcatgtactttagggtacacttgattgatttgtgcagtaattacaatcaatctaaatcaaatatattttaacacctattctttattgtgattgtcatgtctattaatacttgc-ttgcccagATTAATGATCGCTATGAGTTCCCTCTGCAACTTGATCTGGATAGAGATGGTGGCAAATACATTGCTCCAAATGCAGATCGAAGTACACGAAACCTTTACA

upper sequence: PP1S123_138V6.1 (Physcomitrella patens), 3'ss of exon 9
lower sequence: EFJ14291 (Selaginella moellendorffii), 3'ss of exon 7
gtgaagagattttcttcattctcttcaatttgctgcattgtgttcttctagcttgttagttctgtatttgatgtattattctgcgtctttttatactgtttgcttcaagcaatatttctgttgtgcagATTAATGATCGCTATGAGTTTCCACTGCAACTAGACTTGGATAGGGAGAACGGAAAGTACCTCTCTCCTGATGCCGACCGTAGTGTTCGAAATTTGTACA
                          |||    || | |  ||| |  | | | | | ||||    ||  ||  | |    |  | || ||||      |||      ||  || || || || |||||| || |||||||| |||||||| |||||| | || || |||||||||||||| || ||  | || || ||||||||  |  | ||  | ||||||||| 
------------------------gtaatagcttgaactacgttgtgttgg-tggatggttcctagttccattcactgaatttgggctgttta------ttgaacagtgcc-taattatgctg-gcagATAAACGATCGCTACGAGTTTCCTCTGCAATTGGATTTAGATAGGGAGAACGGCAAATATTTATCGCCGGATGCCGATAGAGGCGTGAGGAATTTGTACT
















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|67575556|gb|BJ948380.1|BJ948380
EST:     TACAGTTAAAGCGTTTTGAGTATGACTTTATGCGAGACACAATGGTGAAG                         ATTAATGATCGCTATGAGTTTCCACTGCAACTAGACTTGGATAGGGAGAAC
genomic: TACAGTTAAAGCGTTTTGAGTATGACTTTATGCGAGACACAATGGTGAAGgtgaagagat ... tgttgtgcagATTAATGATCGCTATGAGTTTCCACTGCAACTAGACTTGGATAGGGAGAAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tattattctgcgtctttttatactgtttgcttcaagcaatatttctgttgtgcagATTAATGATCGCTATGAGTTTCCACTGCAACTAGACTTGGATAGGGAGAACGGAAAGTACCTCTCTCCTGATGCCGACCGTAGTGTTCGAAATTTGTACA
                                         tttctgtt  CT-rich tract
              tttttatactgttt  TA-rich tract