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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatttcatatgcttctatagtacctcaataacttactgtttttcttgttagtgttttggtctcgtactgatcgtaattgtggtgttttgtgttttccttagGAAGAGAGGAAAATCCTTGAACGGGAATTGGCCCGTGCGAAGGTAAATGCAAACAGAGTTGCTACTGTTGTAGCTAACGAATGGAAAGATTCTAATGACA

Basic information

species Arabidopsis thaliana
transcript AT1G14840.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G14840.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G008556_T01 (Zea mays), 3'ss of exon 6
---gtatatt-tcatatgcttctatagtacctcaataacttactgtttttcttgttagtgttttggtctcgtactgat-cgtaattgtggtgttttgtgttttccttagGAAGAGAGGAAAATCCTTGAACGGGAATTGGCCCGTGCGAAGGTAAATGCAAACAGAGTTGCTACTGTTGTAGCTAACGAATGGAAAGATTCTAATGACA
     | | | |||| || ||   |  |    |   || ||  |||  || ||   | | ||    |       |||| | |  || ||     || || |||  ||||||||| | || ||  ||||| || ||| | || ||||| || || |  ||||||||||||||| ||||||| ||||| || |||||||||||||||||||
gtaacaaactatcatttgattacttcatttgccttcaaattcgtgtcattttttacacttttcacatgaacacttgattcatgcttatg----cttatgattttattagGAAGAAAAGAGAACACTTGACCGTGAACTTGCACGTGCAAAAGTTACAGCAAACAGAGTTGCTTCTGTTGTTGCTAATGAGTGGAAAGATTCTAATGACA

upper sequence: AT1G14840.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G039325_T01 (Zea mays), 3'ss of exon 6
--------gtatatttcatatgcttctatagtacctcaataacttactgtttttcttgttagtgttttggtctcgtactgatcgtaattgtggtgttttgtgttttccttagGAAGAGAGGAAAATCCTTGAACGGGAATTGGCCCGTGCGAAGGTAAATGCAAACAGAGTTGCTACTGTTGTAGCTAACGAATGGAAAGATTCTAATGACA
         |||  ||    || ||   |  |    |   || |   |||   | || |||   ||||   |  | ||   |  |   ||      ||| || |||  ||||||||| | || ||  ||||| || ||| | || ||||| || || |  |||||||| |||||| ||||||| || || || |||||||||||||||||||
gtaacaaactatccttagattggttacttcttttgccttcaaatccatgtcaatttttttacccttttcaacatgaacacttgattcatgcttatgtttatgattttattagGAAGAAAAGAGAACACTTGACCGTGAACTTGCACGTGCAAAAGTTACAGCAAACAGGGTTGCTTCTGTTGTGGCCAATGAGTGGAAAGATTCTAATGACA

upper sequence: AT1G14840.2 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv01s0011g05790.t01 (Vitis vinifera), 3'ss of exon 6
---------------------gtatatttcatatgcttctatagtacctcaataacttactgtttt-tcttgttagtgttttggtctcgtactgatcgtaattgtggtgttttgtgttttcctt---------agGAAGAGAGGAAAATCCTTGAACGGGAATTGGCCCGTGCGAAGGTAAATGCAAACAGAGTTGCTACTGTTGTAGCTAACGAATGGAAAGATTCTAATGACA
                      || || |   |   | | |    |  |||      || | ||   ||| ||| |  | |       || || ||| |  ||| | ||| ||   ||||| ||         |||| || || |||| ||| ||  ||||  |||||||||| ||||||| ||||||||| || ||    |||||||| || |||||||||||| |||||||||
gtaatgtgccatttttaaacaataaatattgaacattgc-aagtcatttcaggcttatatttttgcatctagttggcatatgccatgtgttct-atcattgttgagttgtctttccttttcttttggaccttcagGAGGAAAGAAAAACCCTCGACAGGGAGCTGGCCCGTGCAAAGGTAACTGCAAACAGGGTGGCAGTAGTTGTAGCAAATGAATGGAAAGATGCTAATGACA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttagtgttttggtctcgtactgatcgtaattgtggtgttttgtgttttccttagGAAGAGAGGAAAATCCTTGAACGGGAATTGGCCCGTGCGAAGGTAAATGCAAACAGAGTTGCTACTGTTGTAGCTAACGAATGGAAAGATTCTAATGACA
                  tactgat  putative branch site (score: 2)
                                      ttttgtgttttcctt  putative PPT
                           taattgt  TA-rich tract