Skip to another splice site:
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 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactcccatcttttctggtctttttattttttcctctttgttcatttgatttgattcgtgatgtattgtttcttctttcacgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGGGCCCTAAGAGAGCTAGCAAGATCCGCAAGCTCTTCAACCTCGACAAGGA

Basic information

species Selaginella moellendorffii
transcript EFJ14726
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ14726 (Selaginella moellendorffii), 3'ss of exon 4
lower sequence: PP1S253_7V6.1 (Physcomitrella patens), 3'ss of exon 4
-gtactccca-tcttttctggtctttttattttttcctctttg----ttcatttgatttgattcgtga---tgtattgtttctt-ctttcacgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGGGCCCTAAGAGAGCTAGCAAGATCCGCAAGCTCTTCAACCTCGACAAGGA
  ||  |    ||||   | |  | |     |||      |||    | |||||  || ||    |||   || ||   ||||  || |     | |||||||| ||  || | || |  |||||||| | |||||||||  | |||||||| || |||||||||| ||| ||||| ||||||||||| |||  ||||||
aatagacaaggtcttgattaggatatgcgagtttgttgagttgaaaatgcatttttttggagggatgaccatgcatcacttctggctatggttgtcgcagGTGACAATGACCTGCCTGGACTCACTGATATCGAGAAGCCCAGAATGAGGGGTCCGAAGAGAGCTACCAAAATCCGAAAGCTCTTCAATCTCACCAAGGA
















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|169034100|gb|FE444251.1|FE444251
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169101825|gb|FE500771.1|FE500771
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169048524|gb|FE454419.1|FE454419
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169067524|gb|FE475773.1|FE475773
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169040200|gb|FE448122.1|FE448122
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169049454|gb|FE458300.1|FE458300
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169055042|gb|FE462957.1|FE462957
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169064126|gb|FE472313.1|FE472313
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACAGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169073800|gb|FE484021.1|FE484021
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169112742|gb|FE515118.1|FE515118
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169075486|gb|FE482496.1|FE482496
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169054062|gb|FE462297.1|FE462297
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169074735|gb|FE483305.1|FE483305
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169035698|gb|FE446183.1|FE446183
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169101824|gb|FE500770.1|FE500770
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169056221|gb|FE464070.1|FE464070
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169075485|gb|FE482495.1|FE482495
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169039337|gb|FE449090.1|FE449090
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169102758|gb|FE503966.1|FE503966
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169112741|gb|FE515117.1|FE515117
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169076014|gb|FE480996.1|FE480996
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169058309|gb|FE465023.1|FE465023
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169074734|gb|FE483304.1|FE483304
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169063115|gb|FE471637.1|FE471637
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169049702|gb|FE457768.1|FE457768
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169064127|gb|FE472314.1|FE472314
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169061223|gb|FE470349.1|FE470349
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169065536|gb|FE474828.1|FE474828
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169051339|gb|FE457650.1|FE457650
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169048523|gb|FE454418.1|FE454418
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169058310|gb|FE465024.1|FE465024
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169067221|gb|FE474989.1|FE474989
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169054063|gb|FE462298.1|FE462298
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169056220|gb|FE464069.1|FE464069
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169036060|gb|FE446766.1|FE446766
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169070522|gb|FE479799.1|FE479799
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169039385|gb|FE449112.1|FE449112
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169101289|gb|FE501977.1|FE501977
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169035699|gb|FE446184.1|FE446184
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169040201|gb|FE448123.1|FE448123
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169039338|gb|FE449091.1|FE449091
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
EST: gi|169061224|gb|FE470350.1|FE470350
EST:     CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAG                         GTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG
genomic: CATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGG

RNA-Seq data


 ATGC   Supported by RNA-Seq exonic block that spans over the splice site

 atgs   Truncated intron sequence

Each block is as long as the maximal overhang of any read spanning the junction.
The score is the number of alignments spanning the junction.


Found data for 1 RNA-Seqlibrary.


Block sizes: 35 (upstream exon), 35 (downstream exon)
Score: 127

GGGTATGGGCGACGCGATGGTGAGCGGAGGAGGAAGTCAGTTCGTGGTTGCATTGTCAGCCATGATCTGTCTGTTCTCAATCTCGTGATTGTCAAGCAAGgtactcccat ... acgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGGGCCCTAAGAGAGCTAGCAAGATCCGCAAGCTCTTCAACCTCGACAAGGA




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 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctttgttcatttgatttgattcgtgatgtattgtttcttctttcacgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGGGCCCTAAGAGAGCTAGCAAGATCCGCAAGCTCTTCAACCTCGACAAGGA
              atttgat  putative branch site (score: 127)
                                  tttcttctttcacgtt  putative PPT
         atttgattt  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
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactcccatcttttctggtctttttattttttcctctttgttcatttgatttgattcgtgatgtattgtttcttctttcacgtttgcagGTGAGAAGCACTTACCCGATCTCACTGACACCGAGAAGCCACGGATGAGGGGCCCTAAGAGAGCTAGCAAGATCCGCAAGCTCTTCAACCTCGACAAGGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT