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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

CAGCCTGGAAACTCGCAAACAACCAATATTCAGGCCACCTTTACAAATTTGACCATAAATGTATATACAGATTTTGTTTTTCAGGCAGCAGTCCCAAAGGtatgctacttagtatgctgttgagtgacagctttctaattgtacttctaagatcatcataattcgggtgttaaacatataagttttgcctactgctttca...

Basic information

species Glycine max
transcript GLYMA18G18490.1
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA18G18490.1 (Glycine max), 5'ss of exon 20
lower sequence: LOC_Os02g56110.1 (Oryza sativa), 5'ss of exon 18
-CAGCCTGGAAACTCGCAAACAACCAATATTCAGGCCACCTTTACAAATTTGACCATAAATGTATATACAGATTTTGTTTTTCAGGCAGCAGTCCCAAAGGtatgctacttagtatgct-gttgagtgacagct---ttctaattgtacttctaagatcatcataattcgggtgt-taaacatataagttttgcctactgctttca
 |||||||  ||  | ||    || |   | || || || ||||||||||||||    | |   ||||| |||||||||||||||||||| || ||||||||| ||  | | |     |  |  | || |  ||   ||  |  ||| |||    |  ||| |   ||  ||  |  ||      || | |  | |   |      
GCAGCCTGAGAAACCACACGAGACTACCGTCCATGCTACTTTTACAAATTTGACATCCAGTTCTTATACGGATTTTGTTTTTCAGGCAGCTGTTCCAAAGgta-gcatcatggcgcctttatctattgtcttctatatttgagctgtccttacttg--cattagtgttatggcatgcaagttctcaaatctcacttgacgagc---

upper sequence: GLYMA18G18490.1 (Glycine max), 5'ss of exon 20
lower sequence: PP1S26_191V6.1 (Physcomitrella patens), 5'ss of exon 16
CAGCCTGGAAACTCGC---AAACAACCAATATTCAGGCCACCTTTACAAATTTGACCATAAATGTATATACAGATTTTGTTTTTCAGGCAGCAGTCCCAAAGGt-atgctacttagtatgctgttgagtgacagctttctaattgtacttctaaga--tcatcataattcgggtgttaaacatataagttttgcctactgctttca
   |||| | | || |   |||| || |  ||  |||||  ||  |  || ||| |   ||||   || ||||||||||| |||||||||||||| |||||||| ||  |  ||  | |  |    | |   |  ||   | ||     ||| | |  | ||   | |||    | |  || |  |    |||   | || | | |
--ACCTGCAGATTCACCTAAAACTACTATCATCAAGGCCTTCTACAGTAACTTGTCATCAAATCCTTACACAGATTTTGTCTTTCAGGCAGCAGTACCAAAGgttattgtctttgctcttatcagaaattggatgttgagatttaagtctcttatactttataccacttcctacgatttacttcca---cttgttca-tgttctta
















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|10254436|gb|BE822202.1|BE822202
EST:     GACCATAAATGTATATACAGATTTTGTTTTTCAGGCAGCAGTCCCAAAGT                         TTCTGCAGTTGCACTTAGACCCAGCTAGCGGCAATACTCTCCCTACTAGTG
genomic: GACCATAAATGTATATACAGATTTTGTTTTTCAGGCAGCAGTCCCAAAGGtatgctactt ... aattttcagtTTCTGCAGTTGCACTTAGACCCAGCTAGCGGCAATACTCTCCCTACTAGTG
EST: gi|213595513|gb|DB977921.1|DB977921
EST:     CATAAATGTATATACAGATTTAGATTTTCAGGCAGCAGTCCCAAAGT                         TTCTGCAGTTGCACTTAGACCCAGCTGGCGGCAATACTCTCCCTACTAGTG
genomic: CATAAATGTATATACAGATTTTGTTTTTCAGGCAGCAGTCCCAAAGGtatgctactt ... aattttcagtTTCTGCAGTTGCACTTAGACCCAGCTAGCGGCAATACTCTCCCTACTAGTG