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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattgtgtttgtatttgattatatgctaattgttgttttgataaaaaaaaaaaaaaatctatcatctggttagcagagaagtctgccttttgttaatgtcatgtatttgatttctatatccatatgctccctccagCTTGGACCTTTGGGGATATAAACGTGTTGAGGAGATCATTTGGGTCAAAACAAATCAACTTCAGCGAATAATCAGAACTGGGCGTACAGGTCACTGGCTC

Basic information

species Glycine max
transcript GLYMA07G07300.1
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G07300.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G10760.1 (Arabidopsis thaliana), 3'ss of exon 4
gtattgtgtttgtatttgattatatgctaattgttgttttgataaaaaaaaaaaaaaatctatcatctggttagcagagaagtctgccttttgttaatgtcatgtatttgatttctatatccatatgctccctccagCTTGGACCTTTGGGGATATAAACGTGTTGAGGAGATCATTTGGGTCAAAACAAATCAACTTCAGCGAATAATCAGAACTGGGCGTACAGGTCACTGGCTC
                                               |   | ||||||||  || |   ||    |   |   ||   |||   | | | ||| | ||  ||| |            |   |  || ||||| ||||||||||| || || || || |||||||| ||||| || |||||||||||||| || || ||  |||| ||  | |||||||||||||||
---------------------------------------------gtacttagaaaaatct--caacaaattttgtgttca---tgtgcttttccactctaatggagttttttttt-----------tttttttaagTTTGGAGCTTTGGGGATACAAGCGAGTGGAAGAGATCATATGGGTAAAGACAAATCAACTTCAACGTATTATTCGAACAGGAAGAACAGGTCACTGGCTC

upper sequence: GLYMA07G07300.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv02s0025g02400.t01 (Vitis vinifera), 3'ss of exon 4
gtattgtgtttgtatttgattatatgctaattgttgttttgataaaaaaaaaaaaaaatctatcatctggttagcagagaagtctgccttttgttaatgtcatgtatttgatttctatatccatatgctccctccagCTTGGACCTTTGGGGATATAAACGTGTTGAGGAGATCATTTGGGTCAAAACAAATCAACTTCAGCGAATAATCAGAACTGGGCGTACAGGTCACTGGCTC
                          ||||||    | || |   |       | |   ||     || ||  ||  | ||   |  |     ||  | |||  |     ||||     ||  | |||| | |  ||  | ||  | |||||||| || |||||||| || ||||| |||||||| || ||||||||||| |||||||| ||||| |||||||| || || ||||| 
--------------------------ctaatt-ccatattcacctacttgcctacatgcctgcttgcttgt--gctcacaaactttgccaaaattggtctcacatgc---attt-----tctgtgtgctgcttgtagTCTAGAATTGTGGGGATACAAGCGTGTTGAAGAAATCATCTGGGTCAAGACTAATCAACTTCAACGAATAATTAGAACAGGGCGTACTGGCCATTGGCTT

upper sequence: GLYMA07G07300.1 (Glycine max), 3'ss of exon 5
lower sequence: PP1S249_97V6.1 (Physcomitrella patens), 3'ss of exon 5
gtattgtgtttgtatttgattatatgctaattgttgttttgataaaaaaaaaaaaaaatctatcatctggttagcagagaagtctgccttttgttaatgtcatgtatttgatttctatatccatatgctccctccagCTTGGACCTTTGGGGATATAAACGTGTTGAGGAGATCATTTGGGTCAAAACAAATCAACTTCAGCGAATAATCAGAACTGGGCGTACAGGTCACTGGCTC
                        |  | || ||   |||| |  | | |  |    | ||   || ||  || |  ||          |  ||| |  ||    || |   |||| ||     ||  | |  ||||| | ||  | ||||| || ||| |  | || || ||||| ||||||||||| ||||| ||||||||||| ||| | || ||||| |||||||| ||||| 
-----------------------gtttttatagtccgtttggtgcatacatgatgtcagcttgaatttgtctaacgtag----------tgcgtttacttcgaacatgtccattctgtaa----attgtgcaaccagCCTTGAGTTATGGGGCTACAAAAGAATGGAAGAAATCATCTGGGTCAAAACCAATCAGCTTCAGCGAATTATCCGGACAGGGCGAACAGGTCATTGGCTA

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|6665975|gb|AW277434.1|AW277434
EST:     CTTATTTTTCTATGGGTCACTGGACGTGCAATGGAACTTGGGCGGGAATG                         CTTGGACCTTTGGGGATATAAACGTGTTGAGGAGATCATTTGGGTCAAAAC
genomic: CTTATTTTTCTATGGGTCACTGGACGTGCAATGGAACTTGGGCGGGAATGgtattgtgtt ... ctccctccagCTTGGACCTTTGGGGATATAAACGTGTTGAGGAGATCATTTGGGTCAAAAC
EST: gi|22525877|gb|BU084688.1|BU084688
EST:     CTTATTTTTCTATGGGTCACTGGACGTGCAATGGAACTTGGGCGGGAATG                         CTTGGACCTTTGGGGATATAAACGTGTTGAGGAGATCATTTGGGTCAAAAC
genomic: CTTATTTTTCTATGGGTCACTGGACGTGCAATGGAACTTGGGCGGGAATGgtattgtgtt ... ctccctccagCTTGGACCTTTGGGGATATAAACGTGTTGAGGAGATCATTTGGGTCAAAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tctgccttttgttaatgtcatgtatttgatttctatatccatatgctccctccagCTTGGACCTTTGGGGATATAAACGTGTTGAGGAGATCATTTGGGTCAAAACAAATCAACTTCAGCGAATAATCAGAACTGGGCGTACAGGTCACTGGCTC
                                           tgctccctcc  CT-rich tract
                      tatttgatttctatat  TA-rich tract