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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataaatgattatacaatggcttcttgtttgtttcatgaattttgcctaatgattaatccctttacatttaacttatattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGACAACATTGACAATGTACAG

Basic information

species Glycine max
transcript GLYMA19G24250.3
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA19G24250.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G130230_T03 (Zea mays), 3'ss of exon 6
gtaataaatgattatacaatggcttcttgttt---gtttcatgaat-tttgcctaatgattaatccctttacatttaacttatattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGACAACATTGACAATGTACAG
|||||  ||| | | |   || |  |||| ||    |||||  |||  ||| ||||| |||      |||  |   |  | || |   ||| | || ||||| ||||| || || || |||||||| ||||||||||||||||| ||||| ||| |||||
gtaatggatg-taacattttgtcaacttgctttacatttcacaaatacttgtctaattatt------ttttaaccaatatcatgtca-cagCTTGTTCTTCGTTTTGCCAACCGATTATTCTTGCCTCTTTGGAACCGCGACAATATTGATAATATACAG

upper sequence: GLYMA19G24250.2 (Glycine max), 3'ss of exon 6
lower sequence: AT5G40760.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaataaatgattatac-aatggcttcttgtttgtttcatgaattttgcctaatgattaatccctttacatttaacttatattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGACAACATTGACAATGTACAG
||||        | ||  |||| ||   |  |   |   |   ||| | ||| | | | ||   ||||  |    | | | ||| |||||||| || || ||||||||||| ||||||||||||||||||||||| ||||| || || || || |||
gtaacctgcttctctattaatgtctaaatcatcaatctctttctttagacta-tcagtgattattttatctcgtgcatttcttg-cagTTGGTCCTCCGGTTTGCAAATCGCTTTTTCTTGCCACTTTGGAACCGTGACAATATCGAGAACGTGCAG

upper sequence: GLYMA19G24250.2 (Glycine max), 3'ss of exon 6
lower sequence: AT3G27300.2 (Arabidopsis thaliana), 3'ss of exon 7
gtaataaatgattatacaatggcttcttgt--ttgtttcatgaattttgcctaatgatta-atccctttacatttaacttatattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGACAACATTGACAATGTACAG
        | |  | | | | |||||| ||  ||  || || ||||| | | ||| |  | ||    | ||   |   |  |    ||||||||| ||||| ||||| ||||| || || |||||||| |||||||||||||| ||||  || ||||||
-------gtaac-acatatttgcttctagtcattagtttattaatttagacaaataaagatataatctaacgcattcatcgttagtgcagTTGGTTCTTCGGTTTGCCAATCGCTTGTTTTTGCCACTATGGAACCGCGACAATATTGCAAACGTACAG

upper sequence: GLYMA19G24250.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv14s0171g00490.t01 (Vitis vinifera), 3'ss of exon 6
---------------------------------------gtaataaatgattatacaatggcttcttgtttgtttcatgaattt---tgcctaatgattaatccctttacatttaacttatattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGACAACATTGACAATGTACAG
                                         || |||| || ||| ||||  |   | | | |  | |   ||    || ||  |||||  || | |||      ||||| ||| ||||||||||||||| |||||||||||  | || ||||| || |||||||| ||||||||||| |||||||||
gtaatacatgtatcataaaaattgtgtctttatttgataaaaaaaaataataataaaatgtttgtctttgtatgccctattttgaaatgtctgctgatttctctccttatgcc--acttacatttgcagTTGGTACTTCGTTTTGCAAATCGCATGTTTTTGCCCCTCTGGAACCGTGACAACATTGATAATGTACAG

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|254334914|gb|GR844699.1|GR844699
EST:     AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCGG
genomic: AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCGG
EST: gi|18040428|gb|BM308722.1|BM308722
EST:     AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
genomic: AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
EST: gi|254338293|gb|GR849818.1|GR849818
EST:     ATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
genomic: ATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
EST: gi|16279238|gb|BI943331.1|BI943331
EST:     AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTG                         TTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC
genomic: AGATTTATCGTATTGATCACTACTTGGGAAAGGAACTAGTGCAGAACTTGgtaataaatg ... atattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttcatgaattttgcctaatgattaatccctttacatttaacttatattggcagTTGGTACTTCGCTTTGCAAATCGGTTTTTCTTGCCACTTTGGAACCGCGACAACATTGACAATGTACAG
                                    atttaac  putative branch site (score: 3)
                               tttacatttaacttat  TA-rich tract