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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttcatatcgaactaaacacatctcttagttcaaagtttctttctttaattatcttttttgtcttgttgcttgtagAAAGAATCAGCAAAAAAGAACCATATGTCATGTAACGCAAGAGAATCTTTCTTCTGATTTGTGGGCTTGGCGTAAATACGGTCAAAAACCCATCAAAGGC

Basic information

species Arabidopsis thaliana
transcript AT5G52830.1
intron # 1
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G52830.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA09G24080.1 (Glycine max), 3'ss of exon 3
----------------------------------------------------------------------gtttgttcatatcgaactaaacacatctcttagttcaaagtttctttctttaattatcttttttgtcttgttgcttgtagAAAGAATCAGCAAAAAAGAACCATATGTCATGTAACGCAAGAGAATCTTTCTTCTGATTTGTGGGCTTGGCGTAAATACGGTCAAAAACCCATCAAAGGC
                                                                      ||       | ||  |   |  | | | | ||    |||    ||   |||||      |||   | ||  |   |  |||||||  ||||| || | ||   |||| ||||||||   | | || || || || || |||||||| ||||| ||||| || ||||||||||||||||||
gtaaataatcacttcaattcccatttacaaacacactttactcaatctcattacattaacaaaaccaaaagtcaaactttttcccatgcataaaaccccataacataaaaacactacatttaacatcaatttccatttttct--ctacagAAAGAGCCAGCAGAAGAAAATGGTATGCCATGTAACCGCACAAAACCTCTCATCAGACTTGTGGGCATGGCGAAAATATGGACAAAAACCCATCAAAGGC

upper sequence: AT5G52830.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA16G29560.1 (Glycine max), 3'ss of exon 1
----------------------------------------------------gtttgttcatatcgaact-aaacacatctcttagttcaaagtttctttctttaattatcttttttgtcttgttgcttgtagAAAGAATCAGCAAAAAAGAACCATATGTCATGTAACGCAAGAGAATCTTTCTTCTGATTTGTGGGCTTGGCGTAAATACGGTCAAAAACCCATCAAAGGC
                                                       |   || |   ||||  |||   || | ||  | |||         ||||  |   | |    | || ||   |  ||||| |  || || || | ||   | || ||||||||   ||| ||||| || || || |||||||| ||||| ||||| || ||||||||||||||||||
gtaaataatcacttcaattcccatttacaaacacactttattcaatttcattacattaacaaaaaaaactcgaacttttcccatacataaaacccctacattttacatcaatatccattttttttttctacagAAAAAGCCATCAGAAGAAAATGGTGTGCCATGTAACAGCAGACAATCTGTCATCAGACTTGTGGGCATGGCGAAAATATGGGCAAAAACCCATCAAAGGC


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctcttagttcaaagtttctttctttaattatcttttttgtcttgttgcttgtagAAAGAATCAGCAAAAAAGAACCATATGTCATGTAACGCAAGAGAATCTTTCTTCTGATTTGTGGGCTTGGCGTAAATACGGTCAAAAACCCATCAAAGGC
                      ctttaat  putative branch site (score: 4)
                               tcttttttgtcttgtt  putative PPT
           aaagtttctttcttta  TA-rich tract