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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaacttctcattctatgatcttatactaattttacattgctctgctttgccattctctgatcaaatgaactgttttctttctctgtgacagGCATTATAACATGAACCGGATCCGATTAGTTTGGTCCCGCATATGGAATGTTCTTTCTGATTTCTTCGTATCAGTTGGCTTGTCAGAGAATCTCTCTGTT

Basic information

species Arabidopsis thaliana
transcript AT4G35380.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G35380.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G365185_T01 (Zea mays), 3'ss of exon 7
gtaacttctcattctatgatcttatactaattttac------attgctctgctt--tgccattctctgatcaaatgaactgtttt---ctttctctgtgacagGCATTATAACATGAACCGGATCCGATTAGTTTGGTCCCGCATATGGAATGTTCTTTCTGATTTCTTCGTATCAGTTGGCTTGTCAGAGAATCTCTCTGTT
||||  |   | ||||||| ||    | |  |  |       ||   | || ||   | || | | |    ||| || ||  ||     ||||  ||  |||||||||| || |||||||| || || || ||||||||||| || ||||| ||||| || ||||| || || || ||||| ||||||||||| || || |||
gtaagcttataatctatgacctatgtcaagctacatgaaattatgaatatgtttgtagacaatattttccaaaacgacctaattcgaagtttcattgc-acagGCATTACAATATGAACCGCATTCGTTTGGTTTGGTCCCGTATTTGGAAAGTTCTGTCAGATTTTTTTGTTTCTGTTGGGTTGTCAGAGAACCTTTCAGTT

upper sequence: AT4G35380.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA02G48200.1 (Glycine max), 3'ss of exon 7
-----gtaacttc---tcattctatgatcttatactaattttacattgctctgctttgccattctctgatcaaatgaactgttttctttctctgtgacagGCATTATAACATGAACCGGATCCGATTAGTTTGGTCCCGCATATGGAATGTTCTTTCTGATTTCTTCGTATCAGTTGGCTTGTCAGAGAATCTCTCTGTT
     || | | |   | ||||| |  ||||  ||   | | |      |     |   |||||  |   |  | ||   |       |  |  |  |||||||||||| |||||||| ||| ||||||| ||||| ||||||||||||||||| || |||||||| || |||||||| |||||||| ||  | || |||
aatcggtgattccaagttattctcttctcttgcacatttatgattaaaattctaatgatcattcaatctacttaagactagaacatggttgcatttgcagGCATTATAATATGAACCGCATCAGATTAGTATGGTCTCGCATATGGAATGTTCTCTCAGATTTCTTTGTGTCAGTTGGATTGTCAGAAAACTTGTCAGTT

upper sequence: AT4G35380.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA14G00230.1 (Glycine max), 3'ss of exon 8
-----gtaacttctcatt-ctatgatcttatactaattttacattgctctgct--ttgccattctctgatcaaatgaactgttttctttctctgtgacagGCATTATAACATGAACCGGATCCGATTAGTTTGGTCCCGCATATGGAATGTTCTTTCTGATTTCTTCGTATCAGTTGGCTTGTCAGAGAATCTCTCTGTT
     || | | |   ||  | |  ||| || |  ||||   |||    | ||  |   |||||  |   |  | ||   |       |  |  |  |||||||||||| |||||||| ||| ||||||| ||||| ||||||||||||||||| || |||||||| || || ||||| |||||||| ||  | || |||
aattggtgattccaagttattctcttctcatgcacatttatgattaaaattctaatgatcattcaatctacttaagactagaacatggttgcatttgcagGCATTATAATATGAACCGCATCAGATTAGTATGGTCTCGCATATGGAATGTTCTCTCAGATTTCTTTGTGTCGGTTGGATTGTCAGAAAACTTGTCAGTT

upper sequence: AT4G35380.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv03s0038g04090.t01 (Vitis vinifera), 3'ss of exon 7
------gtaact-tctcattctatgatcttatactaattttacattgctctgctttgccattctctg--atcaaatgaactgtt-ttctttctctgtgacagGCATTATAACATGAACCGGATCCGATTAGTTTGGTCCCGCATATGGAATGTTCTTTCTGATTTCTTCGTATCAGTTGGCTTGTCAGAGAATCTCTCTGTT
      ||||   | ||||| |  || |  |||  |  | |    |||  |   |    || |  ||  ||  | | |  | || || ||| | |||  ||||||||| || |||||||| ||| || | || ||||| ||||||||||||||||| ||||||||||| |||||||||||||||||||| || ||||| |||
aaggttgtaaaaatgtcatttt--gaacagataagagatatgggatgcgttttataatgatgccatgttatttatttattttttattttttgtttgtttcagGCATTACAATATGAACCGCATCAGACTTGTATGGTCTCGCATATGGAATGTTCTATCTGATTTCTTTGTATCAGTTGGCTTGTCAGAAAACCTCTCAGTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgctctgctttgccattctctgatcaaatgaactgttttctttctctgtgacagGCATTATAACATGAACCGGATCCGATTAGTTTGGTCCCGCATATGGAATGTTCTTTCTGATTTCTTCGTATCAGTTGGCTTGTCAGAGAATCTCTCTGTT
                  ctctgat  putative branch site (score: 4)
                                 ctgttttctttctctg  putative PPT
                                    ttttcttt  TA-rich tract