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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagacttcttgtaaataatcatatcgttcctggctttccatactatttcctcttatcagattttatattaagctgtctatgttttcagGGTGTGATTGAATGTCCTGTTCCAGATAAGGATATTCGAAGATTTGATGCAAACATGCGCTTATTTCCGCCATTTATTGACAATGATGTCTGTTCTTTAA

Basic information

species Arabidopsis thaliana
transcript AT5G44240.2
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: AT5G44240.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM5G865163_T01 (Zea mays), 3'ss of exon 4
--------------------------------------gtaagacttcttgta-aataatcatatcgttcctggctttccatactatttc-----ctcttatcagattttatattaagct----gtctatgttttcagGGTGTGATTGAATGTCCTGTTCCAGATAAGGATATTCGAAGATTTGATGCAAACATGCGCTTATTTCCGCCATTTATTGACAATGATGTCTGTTCTTTAA
                                       |||   ||||| |     |      |    ||    || | ||    |||      |  | ||   | ||   ||||   |       ||  |   ||||||||||| || || ||  | |||||||| || || |||||||||||||||||||| ||| | ||||| ||||| ||||| |||||  | ||  | || |
gttaaacttttatttgttttatctgcttcacttttgttttaatttttcttttgcggcagcagggtaacccccattttactatggattttagtatgcattcatttaacttcccattacctttatgaattaactaaacagGGTGTGATCGAGTGCCCAATACCAGATAAAGACATACGAAGATTTGATGCAAACATCCGCCTGTTTCCTCCATTCATTGATAATGACATTTGCCCATTGA

upper sequence: AT5G44240.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G411940_T01 (Zea mays), 3'ss of exon 7
-------------------------------------gtaagacttcttgta-aataatcatatcgttcctggctttccatactatttc-----ctcttatcagattttatattaagct----gtctatgttttcagGGTGTGATTGAATGTCCTGTTCCAGATAAGGATATTCGAAGATTTGATGCAAACATGCGCTTATTTCCGCCATTTATTGACAATGATGTCTGTTCTTTAA
                                      |||   ||||| |     |      |    ||    || | ||    |||      |  | ||   | ||   ||||   |       ||  |   ||||||||||| || || ||  | |||||||| || || |||||||||||||||||||| ||| | ||||| ||||| ||||| |||||  | ||  | || |
gttaaacttttatttgttttatctgcttcacttttgtttaatttttcttttgcggcagcagggtaacccccattttactatggattttagtatgcattcatttaacttcccattacctttatgaattaactaaacagGGTGTGATCGAGTGCCCAATACCAGATAAAGACATACGAAGATTTGATGCAAACATCCGCCTGTTTCCTCCATTCATTGATAATGACATTTGCCCATTGA

upper sequence: AT5G44240.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA13G37090.1 (Glycine max), 3'ss of exon 5
gtaagacttcttgtaaataatcatatcgttcctggctttccatactatttcctcttatcagattttatattaagctgtctatgttttcagGGTGTGATTGAATGTCCTGTTCCAGATAAGGATATTCGAAGATTTGATGCAAACATGCGCTTATTTCCGCCATTTATTGACAATGATGTCTGTTCTTTAA
                 |||| |||| | ||            |||| ||  | |    |   | | | |     ||| | ||| |  ||||||| ||||| |||||   ||||||||| || ||  | ||||||||||||||||||||  | ||||| ||||||||||| |||||| | ||  ||||||
---------------gttaattatataggtca-----------actacttaatttctctattctctctgtgtgtatgtgtgtgtctctagGGTGTTATTGAGTGTCCCTATCCAGATAAAGACATCAGGAGATTTGATGCAAACATGCGGCTGTTTCCCCCATTTATTGATAATGATATATGCCCTTTAA

upper sequence: AT5G44240.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA12G33340.1 (Glycine max), 3'ss of exon 5
------gtaagacttcttgt--aaataatcatatcgttcctggctttccatactatttcctcttatcagattttatattaagctgtctatgttttcagGGTGTGATTGAATGTCCTGTTCCAGATAAGGATATTCGAAGATTTGATGCAAACATGCGCTTATTTCCGCCATTTATTGACAATGATGTCTGTTCTTTAA
       | ||  | | | |  | ||||  | |||           | || ||      || ||  |    |||||    |    | ||||   |       | |   ||   | |  | |||  | |    ||   | |      |    |||| |   | |  |    | ||  | |||     |           
gtgtaattgagtgtccctatccagataaagacatcaggagatttgatgcaaacatgcggctgtttcccccatttattgataatgatatatgccctttaaccattaa-aaacaccattcttcagTCATGTTACTTGAGAAACACTGAGTGGGCATGTGG--AGTGGCTGTGTATACAGGCAAGCCCAT-----------


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctttccatactatttcctcttatcagattttatattaagctgtctatgttttcagGGTGTGATTGAATGTCCTGTTCCAGATAAGGATATTCGAAGATTTGATGCAAACATGCGCTTATTTCCGCCATTTATTGACAATGATGTCTGTTCTTTAA
                                              tgttttc  CT-rich tract
                 tcttatcagattttat  TA-rich tract