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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTTCAGCGAGATTTTCGTACATCAGTTGATACACACGATCGAGTTTGTGTTGGGGGCTGTCTCAAACACCGCATCGTATCTTCGTCTGTGGGCATTGAGgtaacaatcccgacttccggcgactttgggaagcctcctgacacgtttttcttcgttgcag

Basic information

species Selaginella moellendorffii
transcript EFJ12515
intron # 15
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ12515 (Selaginella moellendorffii), 5'ss of exon 15
lower sequence: GRMZM2G058910_T01 (Zea mays), 5'ss of exon 16
AGTTCAGCGAGATTTTCGTACATCAGTTGATACACACGATCGAGTTTGTGTTGGGGGCTGTCTCAAACACCGCATCGTATCTTCGTCTGTGGGCATTGAGgtaaca--atcccgacttccggcgac-tttgggaagcctc-ctgacacgtttttcttcgttgcag---------------------------------------------------------------------------------------------------------
||||| | ||  |||| || || ||  |||| |||||||| || |||||  |||| || |||||||||||||| || || |||||||| |||||  ||||||||    ||    |       |    |||    |||||| |  |  |    | |     | |                                                                                                           
AGTTCGGTGAAGTTTTTGTTCACCAACTGATTCACACGATAGAATTTGTTCTGGGTGCAGTCTCAAACACCGCTTCATACCTTCGTCTTTGGGCTCTGAGgtaatgctattttaagcagtatctttatttacacagcctcacctatgcacagtcccatacttcctttgtttggctgcaccctaatccacataggtgcattggagtgcagccaaacaagtcattttattacctcactggctactaacgtgctactgatattctcctttcag
















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|169096765|gb|FE499781.1|FE499781
EST:     TTGGGGGCTGTCTCAAACACCGCATCGTATCTTCGTCTGTGGGCATTGAG                         TTTGGCCCATGCAGAACTTTCGGCCGTGTTTTACGAGAAAGTGTTGCTGCT
genomic: TTGGGGGCTGTCTCAAACACCGCATCGTATCTTCGTCTGTGGGCATTGAGgtaacaatcc ... ttcgttgcagTTTGGCCCATGCAGAACTTTCGGCCGTGTTTTACGAGAAAGTGTTGCTGCT
EST: gi|169055647|gb|FE465291.1|FE465291
EST:     TTGGGGGCTGTCTCAAACACCGCATCGTATCTTCGTCTGTGGGCATTGAG                         TTTGGCCCATGCAGAACTTTCGGCCGTGTTTTACGAGAAAGTGTTGCTGCT
genomic: TTGGGGGCTGTCTCAAACACCGCATCGTATCTTCGTCTGTGGGCATTGAGgtaacaatcc ... ttcgttgcagTTTGGCCCATGCAGAACTTTCGGCCGTGTTTTACGAGAAAGTGTTGCTGCT
EST: gi|169083434|gb|FE494819.1|FE494819
EST:     TTGGGGGCTGTCTCAAACACCGCATCGTATCTTCGTCTGTGGGCATTGAG                         TTTGGCCCATGCAGAACTTTCGGCCGTGTTTTACGAGAAAGTGTTGCTGCT
genomic: TTGGGGGCTGTCTCAAACACCGCATCGTATCTTCGTCTGTGGGCATTGAGgtaacaatcc ... ttcgttgcagTTTGGCCCATGCAGAACTTTCGGCCGTGTTTTACGAGAAAGTGTTGCTGCT
EST: gi|169077635|gb|FE484897.1|FE484897
EST:     TTGGGGGCTGTCTCAAACACCGCATCGTATCTTCGTCTGTGGGCATTGAG                         TTTGGCCCATGCAGAACTTTCGGCCGTGTTTTACGAGAAAGTGTTGCTGCT
genomic: TTGGGGGCTGTCTCAAACACCGCATCGTATCTTCGTCTGTGGGCATTGAGgtaacaatcc ... ttcgttgcagTTTGGCCCATGCAGAACTTTCGGCCGTGTTTTACGAGAAAGTGTTGCTGCT
EST: gi|169071916|gb|FE477644.1|FE477644
EST:     CAAATCACCGCATCGTATCTTCGTCTGTGGGCATTGAG                         TTTGGCCCATGCAGAACTTTCGGCCGTGTTTTACGAGAAAGTGTTGCTGCT
genomic: CAAA-CACCGCATCGTATCTTCGTCTGTGGGCATTGAGgtaacaatcc ... ttcgttgcagTTTGGCCCATGCAGAACTTTCGGCCGTGTTTTACGAGAAAGTGTTGCTGCT
EST: gi|169079672|gb|FE486336.1|FE486336
EST:     TTGGGGGCTGTCTCAAACACCGCATCGTATCTTCGTCTGTGGGCATTGAG                         TTTGGCCCATGCAGAACTTTCGGCCGTGTTTTACGAGAAAGTGTTGCTGCT
genomic: TTGGGGGCTGTCTCAAACACCGCATCGTATCTTCGTCTGTGGGCATTGAGgtaacaatcc ... ttcgttgcagTTTGGCCCATGCAGAACTTTCGGCCGTGTTTTACGAGAAAGTGTTGCTGCT

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: 31 (upstream exon), 35 (downstream exon)
Score: 19

AGTTCAGCGAGATTTTCGTACATCAGTTGATACACACGATCGAGTTTGTGTTGGGGGCTGTCTCAAACACCGCATCGTATCTTCGTCTGTGGGCATTGAGgtaacaatcc ... ttcgttgcagTTTGGCCCATGCAGAACTTTCGGCCGTGTTTTACGAGAAAGTGTTGCTGCTCGCCTGGGG




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