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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatattatgtctttgttttattgtgtacattatcacttgcattctaatacttttttatcgtccacctccagGTATGCAAATGTAAAGACACCAGAACGCCATGTGCGAACACGCCTATACTTCACATCA

Basic information

species Glycine max
transcript GLYMA09G37610.1
intron # 24
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 24
lower sequence: AT3G01310.2 (Arabidopsis thaliana), 3'ss of exon 27
---gtaaatattatgtctttgttt--tattgtgtacattatcacttgcatt-ctaatacttttttatcgtc-cacctccagGTATGCAAATGTAAAGACACCAGAACGCCATGTGCGAACACGCCTATACTTCACATCA
    ||    |||  |  |   |   | || | || ||  | | ||    | |||||   |  || || |  | | |  |||||||||||||| |||||||| ||||| |||||| | || || || ||||||||||| 
gtaatagtctttactttctctctcactcttatatagatagttatttcggctactaattggtggttttcatttcgcttttagGTATGCAAATGTGAAGACACCTGAACGTCATGTGAGGACTCGACTTTACTTCACATCT

upper sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 24
lower sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 26
--------gtaaatattatgtctttgtttta-ttgtgtacattatcact-tgcattctaatacttttttatcgtccacctccagGTATGCAAATGTAAAGACACCAGAACGCCATGTGCGAACACGCCTATACTTCACATCA
         | ||     |   ||||| ||| |  ||||||     | | |  ||  ||| | ||  || |  |   |   ||||||||||||||| ||||||||||||||||||||||| |||||||| || || ||||||
gtgaatacatgaaccacttaagtttgtcttagtcctgtacacctcaattatttatattaagatttccttgttattttcaatcagGTATGCAAATGTGAAGACACCAGAACGCCATGTGCGCACACGCCTCTATTTTACATCA
















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|120492770|gb|EH220937.1|EH220937
EST:     GATCAAGATGATGATGATGATAAAGAGACCAAATATCGTTTGGATCCAAA                         GTATGCAAATGTAAAGACACCAGAACGCCATGTGCGAACACGCCTATACTT
genomic: GATCAAGATGATGATGATGATAAAGAGACCAAATATCGTTTGGATCCAAAgtaaatatta ... ccacctccagGTATGCAAATGTAAAGACACCAGAACGCCATGTGCGAACACGCCTATACTT
EST: gi|10237535|gb|BE806423.1|BE806423
EST:     ATCAAGATGATGATGATGATAAAGAGACCAAATATGCGTT-GGATCCAAA                         GTATGCANATGTAAAGACACCAGAACGCCATGTGCGAACACGCCTATACTT
genomic: ATCAAGATGATGATGATGATAAAGAGACCAAATAT-CGTTTGGATCCAAAgtaaatatta ... ccacctccagGTATGCAAATGTAAAGACACCAGAACGCCATGTGCGAACACGCCTATACTT
EST: gi|19348846|gb|BM893378.1|BM893378
EST:     GATCAAGATGATGATGATGATAAAGAGACCAAATATCGTTTGGATCCAAA                         GTATGCAAATGTAAAGACACCAGAACGCCATGTGCGAACACGCCTATACTT
genomic: GATCAAGATGATGATGATGATAAAGAGACCAAATATCGTTTGGATCCAAAgtaaatatta ... ccacctccagGTATGCAAATGTAAAGACACCAGAACGCCATGTGCGAACACGCCTATACTT
EST: gi|15203141|gb|BI425909.1|BI425909
EST:     GATCAAGATGATGATGATGATAAAGAGACCAAATATCGTTTGGATCCAAA                         GTATGCAAATGTAAAGACACCAGAACGCCATGTGCGAACACGCCTATACTT
genomic: GATCAAGATGATGATGATGATAAAGAGACCAAATATCGTTTGGATCCAAAgtaaatatta ... ccacctccagGTATGCAAATGTAAAGACACCAGAACGCCATGTGCGAACACGCCTATACTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttattgtgtacattatcacttgcattctaatacttttttatcgtccacctccagGTATGCAAATGTAAAGACACCAGAACGCCATGTGCGAACACGCCTATACTTCACATCA
                         ttctaat  putative branch site (score: 2)
                                 cttttttatcgtcc  CT-rich tract
                        attctaatactttttt  TA-rich tract