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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttagaagctattcattcgttttgtataagctactgattccttctcaatcgtttggtgttgtgaacatatttttttctttcacagAGACTCTGGTTCAAGACAAATCTTAAACTCTGCAACATCTGGTTTGACATTGGTGAATACAGACGGATGACTAAG

Basic information

species Arabidopsis thaliana
transcript AT2G26990.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT2G26990.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv08s0040g00430.t01 (Vitis vinifera), 3'ss of exon 4
gtttagaagctattcattcgttttgta-taagctactgattccttctcaatcgtttggtgttgtgaacatatttttttctttc---acagAGACTCTGGTTCAAGACAAATCTTAAACTCTGCAACATCTGGTTTGACATTGGTGAATACAGACGGATGACTAAG
  |||   | | ||  || || ||  | |    | ||  |  ||| |  |   | |    ||   || |||||  | ||||      |||||| | ||||| |||||||||||||| || ||||| || ||||| ||||| ||||||||  | || |||| ||||
-gttacgggttttt--tttgtcttaaactttattgctcttcacttgttgaggatgttagttttaaaatatattactctcttgatgggcagAGATTGTGGTTTAAGACAAATCTTAAGCTTTGCAAGATTTGGTTCGACATGGGTGAATATGGGCGAATGAGTAAG
















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|86049782|gb|DR345537.1|DR345537
EST:     AAGAGTTCTATCAGACCACTTTGAAAGCCCTTGAAGAGGCTAAGAATGAG                         AGACTCTGGTTCAAGACAAATCTTAAACTCTGCAACATCTGGTTTGACATT
genomic: AAGAGTTCTATCAGACCACTTTGAAAGCCCTTGAAGAGGCTAAGAATGAGgtttagaagc ... tctttcacagAGACTCTGGTTCAAGACAAATCTTAAACTCTGCAACATCTGGTTTGACATT
EST: gi|152038205|gb|BP811111.2|BP811111
EST:     AAGAGTTCTATCAGACCANTTTGAAAGCCCT-GAAGAGGCTAAGAATGAG                         AGACTCTGGTTCAAGACAAATCTTAAACTCTGCAAGATCTGGTTTGACATG
genomic: AAGAGTTCTATCAGACCACTTTGAAAGCCCTTGAAGAGGCTAAGAATGAGgtttagaagc ... tctttcacagAGACTCTGGTTCAAGACAAATCTTAAACTCTGCAACATCTGGTTTGACATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctactgattccttctcaatcgtttggtgttgtgaacatatttttttctttcacagAGACTCTGGTTCAAGACAAATCTTAAACTCTGCAACATCTGGTTTGACATTGGTGAATACAGACGGATGACTAAG
 tactgat  putative branch site (score: 2)
                                   catatttttttctttc  putative PPT
                                 aacatatttttttctt  TA-rich tract