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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttattttgattttgttctcttttgtgttattcatgtcaaacgtgaatatttttgttattctgaatattctttttgacaaacagGAAATAGTTGCCTTGTCTGGTGCACATACCTTAGGGAGAGCCAGACCAGACCGTAGTGGTTGGGGAAAACCTGAGACAAAGTACACG

Basic information

species Arabidopsis thaliana
transcript AT1G77490.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G77490.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA04G42720.3 (Glycine max), 3'ss of exon 6
gttattttgattttgttctcttttgtgttattcatgtcaaacgtgaatatt-tttgttat-----tctgaatatt---ctttttgacaaacagGAAATAGTTGCCTTGTCTGGTGCACATACCTTAGGGAGAGCCAGACCAGACCGTAGTGGTTGGGGAAAACCTGAGACAAAGTACACG
|| | |||   | |||   |        ||    |   | |   || |||  |  | |||     | ||| | ||    |  |  |    |||||||| ||||| || ||||||||||| || || ||| |  | |||||||| || |||||||||||||| ||||| || || || |||
gtaaatttc-ctgtgtgtcccacaagaataaaggtagtatattggattatagtccgatatcagattttgacttttaagttactgtatctgcagGAAATTGTTGCGTTATCTGGTGCACACACATTGGGGCGGTCTAGACCAGATCGCAGTGGTTGGGGAAAGCCTGAAACTAAATATACG

upper sequence: AT1G77490.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv18s0001g02470.t01 (Vitis vinifera), 3'ss of exon 6
gttattttgattttgttctcttttgtgttattcatgtcaaacgtgaatatt--tttgttattctgaatatt---ctttttgacaaacagGAAATAGTTGCCTTGTCTGGTGCACATACCTTAGGGAGAGCCAGACCAGACCGTAGTGGTTGGGGAAAACCTGAGACAAAGTACACG
||||| || ||   |||| | ||  | |||||| |        |   ||||  | | | ||  | | | ||   ||||||||     ||||||||||||| || || |||||||| ||  |||| ||  ||||||| || || |||||||||||||| || ||||| ||||| |||
gttatattcatcaagttcacattact-ttattcttaagtgttatctctattgatatatgatgtttactgttgaactttttgatctttagGAAATAGTTGCATTATCGGGTGCACACACGCTAGGAAGGTCCAGACCGGAACGCAGTGGTTGGGGAAAGCCGGAGACTAAGTATACG
















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|125262954|gb|EL277039.1|EL277039
EST:     CAGCTGATCATTTGAGAGATGTTTTCTACAGAATGGGACTTGATGACAAG                         GAAATAGTTGCCTTGTCTGGTGCACATACCTTAGGGAGAGCC
genomic: CAGCTGATCATTTGAGAGATGTTTTCTACAGAATGGGACTTGATGACAAGgttattttga ... tgacaaacagGAAATAGTTGCCTTGTCTGGTGCACATACCTTAGGGAGAGCC
EST: gi|124856631|gb|EH941068.1|EH941068
EST:     GCTGATCATTTGAGAGATGTTTTCTACAGAATGGGACTTGATGACAAG                         GAAATAGTTGCCTTGTCTGGTGCACATACCTTAGGGAGAGCCAGA
genomic: GCTGATCATTTGAGAGATGTTTTCTACAGAATGGGACTTGATGACAAGgttattttga ... tgacaaacagGAAATAGTTGCCTTGTCTGGTGCACATACCTTAGGGAGAGCCAGA
EST: gi|125162625|gb|EL189395.1|EL189395
EST:     CAGCTGATCATTTGAGAGATGTTTTCTACAGAATGGGACTTGATGACAAG                         GAAATAGTTGCCTTGTCTGGTGCACATACCTT
genomic: CAGCTGATCATTTGAGAGATGTTTTCTACAGAATGGGACTTGATGACAAGgttattttga ... tgacaaacagGAAATAGTTGCCTTGTCTGGTGCACATACCTT
EST: gi|125292455|gb|EL306540.1|EL306540
EST:     CAGCTGATCATTTGAGAGATGTTTTCTACAGAATGGGACTTGATGACAAG                         GAAATAGTTGCCTTGTCTGGTGCACATA
genomic: CAGCTGATCATTTGAGAGATGTTTTCTACAGAATGGGACTTGATGACAAGgttattttga ... tgacaaacagGAAATAGTTGCCTTGTCTGGTGCACATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attcatgtcaaacgtgaatatttttgttattctgaatattctttttgacaaacagGAAATAGTTGCCTTGTCTGGTGCACATACCTTAGGGAGAGCCAGACCAGACCGTAGTGGTTGGGGAAAACCTGAGACAAAGTACACG
                                          ttttgac  putative branch site (score: 3)
                                    tattcttttt  CT-rich tract
                aatatttttgttattc  TA-rich tract