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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagaggataattgttgatgttgtcgtgtgatttttttggtttcttgtatacttctccttttggttctgctattgttaaattcattctgacatgtcattttcaaagttcctgctagtgacagttcagcatccaataagttgaataacctcatttctttggttcttttgatttgcagTTTATTGTGGTTTCCTTGAAGGAAGGCATGTTCAATAATGCAAATGTTCTTTTCCGGACAAAATTTGTGGATGGTGTTTCAACTGTTCAGCGAACTGTTG

Basic information

species Glycine max
transcript GLYMA12G36520.1
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA12G36520.1 (Glycine max), 3'ss of exon 20
lower sequence: AT3G47460.1 (Arabidopsis thaliana), 3'ss of exon 19
gtagaggataattgttgatgttgtcgtgtgatttttttggtttcttgtatacttctccttttggttctgctattgttaaattcattctgacatgtcattttcaaagttcctgctagtgacagttcagcatccaataagttgaataacctcatttctttggttcttttgatttgcagTTTATTGTGGTTTCCTTGAAGGAAGGCATGTTCAATAATGCAAATGTTCTTTTCCGGACAAAATTTGTGGATGGTGTTTCAACTGTTCAGCGAACTGTTG
                                                               ||  |  | ||    | |||  |||||      | |  | | | | |    ||    ||||    ||  | ||  |  || |       |   |    |  |||   || ||||| |||||||||||  |||| ||||| |||||||  || ||  ||||||| ||||| |||||||| ||||||||||||||||| || ||| | || ||  
---------------------------------------------------------------gtcataattttacggatttc--tctgattgtgtagtcaccatgattcaaaaagctttagttatctattta-tatctcaaacattactgctgtctgatatgatttctcttacagTTCATTGTGGTTTCACTGAAAGAAGGAATGTTCAGCAACGCCGATGTTCTCTTCCGAACAAAATTCGTGGATGGTGTTTCAACGGTCCAGAGGACAGTAA

upper sequence: GLYMA12G36520.1 (Glycine max), 3'ss of exon 20
lower sequence: AT5G62410.1 (Arabidopsis thaliana), 3'ss of exon 19
gtagaggataattgttgatgttgtcgtgtgatttttttggtttcttgtatacttctccttttggttctgctattgttaaattcattctgacatgtcattttcaaagttcctgctagtgacagttcagcatccaataagttgaataacctcatttctttggttcttttgatttgcagTTTATTGTGGTTTCCTTGAAGGAAGGCATGTTCAATAATGCAAATGTTCTTTTCCGGACAAAATTTGTGGATGGTGTTTCAACTGTTCAGCGAACTGTTG
                                                           | |   ||| ||||  || ||  | | || | ||    | ||| | ||   | ||     || ||  |    | | |  ||            || ||    ||  |   |   |||||||| ||||||||  |||| ||||| |||||||| ||||| |||||||||||||||||||| || || ||||| |||||||| || ||  | || ||  
----------------------------------------------------------gtctaaatct-ctat--ttcaagccttactaatatac--tcttctatgtatttacttaatccaattttggtctctaaacatt------ttctgctttttaaactcgatgcttaaacagTTTATCGTGGTTTCGCTGAAAGAAGGAATGTTCAACAATGCCAATGTTCTTTTCCGGACAAAGTTCGTTGATGGAGTTTCAACAGTCCAAAGGACAGTAA

upper sequence: GLYMA12G36520.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 19
gtagaggataattgttgatgttgtcgtgtgatttttttggtttcttgtatacttctccttttggttctgctattgttaaattcattctgacatgtcattttcaaagttcctgctagtgacagttca-gcatccaataagttgaataacctcatttctttggttcttttgatttgcagTTTATTGTGGTTTCCTTGAAGGAAGGCATGTTCAATAATGCAAATGTTCTTTTCCGGACAAAATTTGTGGATGGTGTTTCAACTGTTCAGCGAACTGTTG
                                                                       |    | ||    ||  | ||    |  ||  | |||| |  ||   |   |||| | |||||||  |||         | |||| || ||| | |||  || ||||| |||||||||||  | || |||||||||||||||||||| |||||||||||||||||||||||||||||||||||||| || |||||| |||||||||
--------------------------------------------------------------------atcaggaatcaagcagtt--ggcagacaagatttcatgttctttttatcaaattttcatgtatccaatgggtt-------tccttttcgtttgttttcttgtctttcagTTCATTGTGGTTTCTCTTAAAGAAGGCATGTTCAATAATGCCAATGTTCTTTTCCGGACAAAATTTGTGGATGGTGTTTCCACAGTTCAGAGAACTGTTG

upper sequence: GLYMA12G36520.1 (Glycine max), 3'ss of exon 20
lower sequence: PP1S52_57V6.1 (Physcomitrella patens), 3'ss of exon 20
gtagaggataattgttgatgttgtcgtgtgatttttttggtttcttgtatacttctccttttggttctgctattgttaaattcattctgacatgtcattttcaaagttcctgctagtgacagttcagcatccaataagttgaataacctcatttctttggttcttttgatttgcagTTTATTGTGGTTTCCTTGAAGGAAGGCATGTTCAATAATGCAAATGTTCTTTTCCGGACAAAATTTGTGGATGGTGTTTCAACTGTTCAGCGAACTGTTG
     | |  |  ||| |   |||| ||| |||| |   |||| | ||       |  | |||     |     |||||    ||      |  | | |  | |  ||      ||| | |       ||| |   | ||  ||     |   | | | ||  ||||| |   ||||| || || || || |||||||| |||||||| ||||||||||||||  | |||||||| |||||||| ||||| || ||||||||     | |||||  
-----gtacgaaagttaaa--tgtcctgtcatttgtcgagtttttagtga-----tagtcttga----gtagcagttaatcctatc----tacttaactcgcgaccttttgtgaagttataa---gatatcaaggcacttacattgtgcc---tgtgttgtaattttggt---cagTTCATCGTAGTGTCGTTGAAGGAGGGCATGTTTAATAATGCAAATGTCATCTTCCGGACCAAATTTGTCGATGGAGTCTCAACTGTCACAAGGACTGTAC

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|58022904|gb|CX709645.1|CX709645
EST:     ACACACAAAACATAGGGAGAATGATAAAGGCTCACTTTCCGCACTCTCAG                         TTTATTGTGGTTTCCTTGAAGGAAGGCATGTTCAATAATGCAAATGTTCTT
genomic: ACACACAAAACATAGGGAGAATGATAAAGGCTCACTTTCCGCACTCTCAGgtagaggata ... tgatttgcagTTTATTGTGGTTTCCTTGAAGGAAGGCATGTTCAATAATGCAAATGTTCTT
EST: gi|58016495|gb|CX703237.1|CX703237
EST:     ACACACAAAACATAGGGAGAATGATAAAGGCTCACTTTCCGCACTCTCAG                         TTTATTGTGGTTTCCTTGAAGGAAGGCATGTTCAATAATGCAAATGTTCTT
genomic: ACACACAAAACATAGGGAGAATGATAAAGGCTCACTTTCCGCACTCTCAGgtagaggata ... tgatttgcagTTTATTGTGGTTTCCTTGAAGGAAGGCATGTTCAATAATGCAAATGTTCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gttcagcatccaataagttgaataacctcatttctttggttcttttgatttgcagTTTATTGTGGTTTCCTTGAAGGAAGGCATGTTCAATAATGCAAATGTTCTTTTCCGGACAAAATTTGTGGATGGTGTTTCAACTGTTCAGCGAACTGTTG
                         cctcatttctttggtt  CT-rich tract
           aataagttgaataa  TA-rich tract