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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagatgaaaagatctttagttattttcttgcattttcattcctttcgagacatatttgtaagtttcttttttttgttgattagGTGGTGAATTTACATCTCCGAATCAAGAGCGTTTCCATCACTACAAG

Basic information

species Arabidopsis thaliana
transcript AT5G50310.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G50310.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA06G18170.1 (Glycine max), 3'ss of exon 4
--------------gtagatgaa---aagatctttagttattttcttgcattttcattcctttcgagacatatttgtaagtttcttttttttgttgattagGTGGTGAATTTACATCTCCGAATCAAGAGCGTTTCCATCACTACAAG
               ||| |||    |  | |||| | |   | |   || ||  |    ||  | |    |||  ||  || ||||| ||||    ||||||||||| ||||||||||| || |||||||| || ||||||||||||
ttttttcgttgttgatagctgagtttactagcttttgcttgctgcccacagttgaaaaatttgtgtggtg-attgctattttacttttgtttgggctttagGTGGTGAGTTTACATCTCCAAACCAAGAGCGGTTTCATCACTACAAG

upper sequence: AT5G50310.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA04G36770.1 (Glycine max), 3'ss of exon 4
----------gtagatgaa-aagatctttagttattttcttgcattttcattcc----tttcgagacatatttgtaagttt-cttttttttgttgattagGTGGTGAATTTACATCTCCGAATCAAGAGCGTTTCCATCACTACAAG
          || ||| |   || |   ||| | ||         |  || |      ||||| |   |  |||| | ||| ||||| |||||     ||||||||| ||||| ||||| || |||||||| || ||||||||||||
acacacagttgttgataattgagtttactagcttttgctggctgctcccagttgaaaatttcgtgtggtgattgttattttacttttatttgtgctccagGTGGTGAGTTTACGTCTCCAAACCAAGAGCGGTTTCATCACTACAAG

upper sequence: AT5G50310.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv17s0000g10130.t01 (Vitis vinifera), 3'ss of exon 4
gtagatgaaaagatctttagttattttcttgcattttcattcctttcgagacatatttgtaagtttc---------------ttttttttgttgattagGTGGTGAATTTACATCTCCGAATCAAGAGCGTTTCCATCACTACAAG
||||||  | | |    | ||  | ||  |  |     | |  |  | | | || |||| || ||                  | || || || | |||||||||| ||||| || |||||||||||| | |||||||||||||||
gtagattgacaaaatcctggtcctatttctttaaaagaaattgtgacaacatatgtttggaatttgggatataatgatataactgttgtttttcaatagGTGGTGAGTTTACGTCCCCGAATCAAGAGTGCTTCCATCACTACAAG

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|164060945|gb|ES063156.1|ES063156
EST:     TTGCTTGGAAGAATTATCTCTACATATTTG                         GTGGTGAATTTACATCTCCGAATCAAGAGCGTTTCCATCACTACAAG
genomic: TTGCTTGGAAGAATTATCTCTACATATTTGgtagatgaaa ... tgttgattagGTGGTGAATTTACATCTCCGAATCAAGAGCGTTTCCATCACTACAAG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcattttcattcctttcgagacatatttgtaagtttcttttttttgttgattagGTGGTGAATTTACATCTCCGAATCAAGAGCGTTTCCATCACTACAAG
                                  tttcttttttttgtt  CT-rich tract
                       atatttgtaagtttct  TA-rich tract