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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatgatataaatttctctatatttgaaaggcgtctttaagctacatcctcctatgtcatttcccctttgatatgttattaacttattattgaagtttatcttcagttttttgctattcattgcttaattcagtaagaaaggtttgtgcagTTAGCGTTTGAGGCACATCATGGTCAAAAGAGACGTAGTGGGGAACCATTCATTATACATCCCGTTGCAGTTGCTCGTATCCTTGGGGAACTT

Basic information

species Arabidopsis thaliana
transcript AT4G02260.2
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT4G02260.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: LOC_Os03g22160.1 (Oryza sativa), 3'ss of exon 4
gtatgatgatataaatttctctatatttgaaaggcgtctttaagctacatcctcctatgtcatttcccctttgatatgttattaacttattattgaagtttatcttcagttttttgctattcattgcttaattcagtaagaaaggtttgtgcagTTAGCGTTTGAGGCACATCATGGTCAAAAGAGACGTAGTGGGGAACCATTCATTATACATCCCGTTGCAGTTGCTCGTATCCTTGGGGAACTT
                       || |||||  ||       |   |||| || | | ||  |||        ||||  |||     | ||||| |    |   |   |  |    |      |||  | ||  |    ||  |  |  ||||||| || | |||||||||| |||| || ||  | || ||||||||||| |||||||| ||||| |||| ||||||||||||||||||||| | |
----------------------gtaattgaagtgc-------aataacattcttccacgtggtttgtggac-aatattctatacttcttttatt-attcctgggtagtgcatgcaccaggaggttgtatcatgtacct-gattgactcttgcagTTGGCATATGAGGCACATAATGGGCAGAAACGCCGAAGTGGGGAACCTTTCATTATTCATCCTGTTGAAGTTGCTCGTATCCTTGGGGAGCAT

upper sequence: AT4G02260.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G353147_T01 (Zea mays), 3'ss of exon 3
gtatgatgatataaatttctctatatttgaaaggcgtctttaagctacatcctcctatgtcatttcccctttgatatgttattaacttattattgaagtttatcttcagttttttgctattcattgct-taattcagtaagaaaggtttgtgcagTTAGCGTTTGAGGCACATCATGGTCAAAAGAGACGTAGTGGGGAACCATTCATTATACATCCCGTTGCAGTTGCTCGTATCCTTGGGGAACTT
                                                          || | |    |    |||| ||  |    |  ||||  ||   |   |          ||   |||  || || |||| ||| ||        |||||| || | ||| |||||   ||| |||||  | || ||||| |||||||||||||| ||||| |||| |||||||||||| ||||| || | |
----------------------------------------------------------gtaactggttcac-aatatcttccttcagtgctatttgagaaaagactgcacgaacgtctg--catcactatagttcattaataac------cgcagTTGGCATATGAAGCACACAGTGGACAAAAACGGCGAAGTGGAGAACCATTCATTATTCATCCTGTTGAAGTTGCTCGTATTCTTGGAGAGCAT


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttatcttcagttttttgctattcattgcttaattcagtaagaaaggtttgtgcagTTAGCGTTTGAGGCACATCATGGTCAAAAGAGACGTAGTGGGGAACCATTCATTATACATCCCGTTGCAGTTGCTCGTATCCTTGGGGAACTT
                          gcttaat  putative branch site (score: 4)
        agtttttt  TA-rich tract