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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttgtggagagttacttagccatgtgcattgaaaatttcctgaggtgaaacgaaccttgaaatctgttggtgcgatgtaaatcgaaaaaactgaattgcatcagttctgttgatagcatgtacttctattttctagtgctcaggtatctaagcttgtttcctcttctttctcttgattgatagGGAGGTGACCTCACGGAGATCGGAGAAAGGGGTGTTAACATCAGTGGGGGACAAAAGCAGAGGGTTTCTATGGCTAGGGCCGTTTACTCAAATTCAGACG

Basic information

species Arabidopsis thaliana
transcript AT1G30400.1
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT1G30400.2 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: LOC_Os04g52900.2 (Oryza sativa), 3'ss of exon 18
gtaagttttgtggagagttacttagccatgtgcattgaaaatttcctgaggtgaaacgaaccttgaaatctgttggtgcgatgtaaatcgaaaaaactgaattgcatcagttctgttgatagcatgtacttctattttctagtgctcaggtatcta-agcttgtttcctcttctttctcttgattgatagGGAGGTGACCTCACGGAGATCGGAGAAAGGGGTGTTAACATCAGTGGGGGACAAAAGCAGAGGGTTTCTATGGCTAGGGCCGTTTACTCAAATTCAGACG
                                                                                    ||||        |  |||  | |    | | ||| |    ||  ||| ||| |||| || |      ||  | |      |   |||||||   |||| |||  |||| |||||||| || ||||| |||||||| || |||||||| |||||||||||||| ||||| || || ||||| || || ||||| ||  ||||||| |
------------------------------------------------------------------------------------aaattatgttgcc--aatacctttttctatcttggt--tttgcgctt-tatattcttgtacctgcaaattgacaagaaaatatatcttcttatgcttg-ttgtcagGGTGGTGACCTAACAGAGATTGGAGAAAGAGGAGTTAACATTAGTGGGGGACAAAAACAGAGAGTCTCAATGGCAAGAGCTGTTTATTCTGATTCAGATG

upper sequence: AT1G30400.2 (Arabidopsis thaliana), 3'ss of exon 18
lower sequence: GLYMA13G29180.1 (Glycine max), 3'ss of exon 18
gtaagttttgtggagagttacttagccatgtgcattgaaaatttcctgaggtgaaacgaaccttgaaatctgttggtgcgatgtaaatcgaaaaaactgaattgcatcagttctgttgatagcatgtacttctattttctagtgctcaggtatctaagcttgtttcctcttctttc--tcttgattgatagGGAGGTGACCTCACGGAGATCGGAGAAAGGGGTGTTAACATCAGTGGGGGACAAAAGCAGAGGGTTTCTATGGCTAGGGCCGTTTACTCAAATTCAGACG
                                                                       ||  |||  ||   | |  | |    | || ||||||    |  |  | |   |  | |  ||  || |   | |   |   ||  ||||  ||| |  |||  |   ||| ||   ||||| ||||| |  || || || || ||||| || || ||||||||||| || ||||||||||| || || |||||||| || || ||||||||||| || |
-----------------------------------------------------------------------gtgagtgt-atactagtt-atagcgtttaagtgcatc----caatgaacaattta-attgttagatttttaagtttgtgggcctt-gcttccttctttctctcacatacttaatgactagGGTGGTGATCATACTGAAATTGGTGAAAGAGGGGTAAACATCAGTGGTGGCCAAAAGCAGAGAGTATCCATGGCTAGAGCTGTCTACTCAAATTCTGATG


















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttctagtgctcaggtatctaagcttgtttcctcttctttctcttgattgatagGGAGGTGACCTCACGGAGATCGGAGAAAGGGGTGTTAACATCAGTGGGGGACAAAAGCAGAGGGTTTCTATGGCTAGGGCCGTTTACTCAAATTCAGACG
                                          tcttgat  putative branch site (score: 4)
                  tctaagcttgtttcct  CT-rich tract
                tatctaa  TA-rich tract