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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtaaactatctggtcatgttgctaagttggacacgaaattccatctttgacttttttcgctttgtttgcgagcagGGAAACTTCGATCTGGTTGGAAACAACATTCCCGTGTTCTTCGTACGTGATGGCATCAAGTTCCCTGACATGATCCACGCTCTCAAGCCAAACCCAAAGA

Basic information

species Selaginella moellendorffii
transcript EFJ33688
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: EFJ33688 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G088212_T02 (Zea mays), 3'ss of exon 2
----------------gtgagtaaactatctggtcatgttgctaagttggacac-------gaaattccatctttgacttttttcgctttgtttgcgagcagGGAAACTTCGATCTGGTTGGAAACAACATTCCCGTGTTCTTCGTACGTGATGGCATCAAGTTCCCTGACATGATCCACGCTCTCAAGCCAAACCCAAAGA
                ||||   || | |  |  ||  ||  | |  |    |        |  ||   |||||    |||| |   |  ||||     ||||| ||||| || || || || |||||||| || ||||| ||| |||| ||||| || || |||||||||||| |||||||| ||||||| || |||||||
tgttggatgccttcaagtgacccaatttttagaacactttattgacctttttatatccagagggatagtatcttatggttttcttcatgcgtttttt--cagGGTAACTTTGACCTCGTGGGTAACAACATGCCTGTGTTTTTCATACGAGATGGGATGAAATTCCCTGACATGGTCCACGCTTTCAAGCCGAATCCAAAGA

upper sequence: EFJ33688 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S422_8V6.3 (Physcomitrella patens), 3'ss of exon 2
gtgagtaaactatctggtcatgttgctaagttggacacgaaattccatctttgacttttttcgctttgtttgcgagcagGGAAACTTCGATCTGGTTGGAAACAACATTCCCGTGTTCTTCGTACGTGATGGCATCAAGTTCCCTGACATGATCCACGCTCTCAAGCCAAACCCAAAGA------------------------------------------------------------
                             |||  | |||| |    |  |  |||     |  ||| |  ||  |  | |        |      || | | ||  |         | ||  ||    || |  |  ||||||||||||||||||||||  | ||||||||||||||||                                                            
-----------------------------gtttcatacgatagaagaagt--gacaagcataacttagggtgatatgatgatgctactggatcatttcggatcacta-------aatattgatat-caattgtgtgcagTTCCCTGACATGATCCACGCCTTGAAGCCAAACCCAAAGAGTCACATCCAGGAGGCATGGCGAATAATGGACTTTTTCTCGCACGTTCCCGAATCCTGCA
















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|169043352|gb|FE451822.1|FE451822
EST:     AGACACTCCGTGATCCCAGAGGCTTTGCCGTCAAATTCTACACGCGGGAG                         GGAAACTTCGATCTGGTTGGAAACAACATTCCCGTGTTCTTCGTACGTGAT
genomic: AGACACTCCGTGATCCCAGAGGCTTTGCCGTCAAGTTCTACACGCGGGAGgtgagtaaac ... ttgcgagcagGGAAACTTCGATCTGGTTGGAAACAACATTCCCGTGTTCTTCGTACGTGAT
EST: gi|169032372|gb|FE440929.1|FE440929
EST:     AGACACTCCGTGATCCCAGAGGCTTTGCCGTCAAGTTCTACACGCGGGAG                         GGAAACTTCGATCTGGTTGGAAACAACATTCCCGTGTTCTTCGTACGTGAT
genomic: AGACACTCCGTGATCCCAGAGGCTTTGCCGTCAAGTTCTACACGCGGGAGgtgagtaaac ... ttgcgagcagGGAAACTTCGATCTGGTTGGAAACAACATTCCCGTGTTCTTCGTACGTGAT
EST: gi|169022284|gb|FE431243.1|FE431243
EST:     AGACACTCCGTGATCCCAGAGGCTTTGCCGTCAAATTCTACACGCGGGAG                         GGAAACTTCGATCTGGTTGGAAACAACATTCCCGTGTTCTTCGTACGTGAT
genomic: AGACACTCCGTGATCCCAGAGGCTTTGCCGTCAAGTTCTACACGCGGGAGgtgagtaaac ... ttgcgagcagGGAAACTTCGATCTGGTTGGAAACAACATTCCCGTGTTCTTCGTACGTGAT
EST: gi|169109507|gb|FE510292.1|FE510292
EST:     AGACACTCCGTGATCCCAGAGGCTTTGCCGTCAAGTTCTACACGCGGGAG                         GGAAACTTCGATCTGGTTGGAAACAACATTCCCGTGTTCTTCGTACGTGAT
genomic: AGACACTCCGTGATCCCAGAGGCTTTGCCGTCAAGTTCTACACGCGGGAGgtgagtaaac ... ttgcgagcagGGAAACTTCGATCTGGTTGGAAACAACATTCCCGTGTTCTTCGTACGTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctaagttggacacgaaattccatctttgacttttttcgctttgtttgcgagcagGGAAACTTCGATCTGGTTGGAAACAACATTCCCGTGTTCTTCGTACGTGATGGCATCAAGTTCCCTGACATGATCCACGCTCTCAAGCCAAACCCAAAGA
                        ctttgac  putative branch site (score: 4)
                              cttttttcgctttgtt  CT-rich tract
                             actttttt  TA-rich tract