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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagatttatgcctggagttagtattgcgtttagtttcatcttaattgttcaccatttattatatctttattgtgtagGCTGACAAATTGGAGAAACTCAGAGAGAGGATGATAAAAGTGCGCGAACTCTTTCGTGATACTGATTCGACCGAATTTGTCATTGTTACAATCCCCACG

Basic information

species Glycine max
transcript GLYMA20G32200.2
intron # 8
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G32200.1 (Glycine max), 3'ss of exon 8
lower sequence: AT3G10350.2 (Arabidopsis thaliana), 3'ss of exon 7
gtaaga-tttatgcctggagttagtattgcgtttagtttcatcttaattgttcaccatttattatatctttattgtgtagGCTGACAAATTGGAGAAACTCAGAGAGAGGATGATAAAAGTGCGCGAACTCTTTCGTGATACTGATTCGACCGAATTTGTCATTGTTACAATCCCCACG
|||||  ||| | | | | | |  ||| |  ||     |  | | | ||| | |  ||||  | |||   | |     |||| ||||||||||| ||||| ||||| |||||| | ||||| ||||| || || ||||| || || || || ||||| |||||||| || ||||| |||
gtaagtctttgtacattg-gctgatatagtattc---ctgttttcatttggttaaaattttctttatggatgtcac--agGCCGACAAATTGGAAAAACTAAGAGAAAGGATGGTTAAAGTTCGCGAGCTTTTCCGTGACACAGAGTCAACAGAATTCGTCATTGTCACTATCCCAACG

upper sequence: GLYMA20G32200.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv13s0019g04590.t01 (Vitis vinifera), 3'ss of exon 8
gtaagatttat--gcctggagttagtattgcgtttagtttcatct-taattgttcaccatt-tattatatctttattgtgtagGCTGACAAATTGGAGAAACTCAGAGAGAGGATGATAAAAGTGCGCGAACTCTTTCGTGATACTGATTCGACCGAATTTGTCATTGTTACAATCCCCACG
||||| || ||  |  ||||| | |||     |   |||  |       |   | |||| | || | |  ||| ||| |||||||||||||||| |||  ||| || ||||| ||| |||||||||| || || || ||||| || || ||||| ||||||||||| || |||||||| |||
gtaagtttgatttgtatggagctggtaccctatgatgttctaaaaactgtcactaaccaatatacttttgcttcattatgtagGCTGACAAATTAGAGCGACTAAGGGAGAGAATGGTAAAAGTGCGGGAGCTTTTCCGTGACACAGACTCGACAGAATTTGTCATAGTAACAATCCCTACG
















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|208341366|gb|GE134120.1|GE134120
EST:     GAAACCCGACAGAATGCT                         GCTGACAAATTGGAGAAACTCAGAGAGAGGATGATAAAAGTGCGCGAACTC
genomic: GAAACCCGACAGAATGCTgtaagattta ... tattgtgtagGCTGACAAATTGGAGAAACTCAGAGAGAGGATGATAAAAGTGCGCGAACTC
EST: gi|51341491|gb|CO982808.1|CO982808
EST:     CCTCAGCAATTAAATCCGTGTTTGGGCAAGAAGAAACCCGACAGAATGCT                         GCTGACAAATTGGAGAAACTCAGAGAGAGGATGATAAAAGTGCGCGAACTC
genomic: CCTCAGCAATTAAATCCGTGTTTGGGCAAGAAGAAACCCGACAGAATGCTgtaagattta ... tattgtgtagGCTGACAAATTGGAGAAACTCAGAGAGAGGATGATAAAAGTGCGCGAACTC
EST: gi|16348975|gb|BI974570.1|BI974570
EST:     CCTCAGCAATTAAATCCGTGTTTGGGCAAGAAGAAACCCGACAGAATGCT                         GCTGACAAATTGGAGAAACTCAGAGAGAGGATGATAAAAGTGCGCGAACTC
genomic: CCTCAGCAATTAAATCCGTGTTTGGGCAAGAAGAAACCCGACAGAATGCTgtaagattta ... tattgtgtagGCTGACAAATTGGAGAAACTCAGAGAGAGGATGATAAAAGTGCGCGAACTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attgcgtttagtttcatcttaattgttcaccatttattatatctttattgtgtagGCTGACAAATTGGAGAAACTCAGAGAGAGGATGATAAAAGTGCGCGAACTCTTTCGTGATACTGATTCGACCGAATTTGTCATTGTTACAATCCCCACG
                tcttaat  putative branch site (score: 3)
                                         tctttatt  putative PPT
                               atttattatatcttta  TA-rich tract