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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttgttcattttatgatttgttacattgtttaactcaattttttggatgttctttactgatcctgcagtattttaatagacacaaatacgttattttcagGTATTGATTATGAAAATGGTGGAACATCCTAATATAGTCAATCTCATTGAGGTGATTGATGATCCAGAGTCGGATGACTTCTACATGG

Basic information

species Glycine max
transcript GLYMA13G40190.1
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G40190.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os03g50330.1 (Oryza sativa), 3'ss of exon 5
---tttgttcattttatgatttgttacattgtttaactcaattttttggatgttctttactgatcctgcagtattttaatagacacaaatacgttattttcagGTATTGATTATGAAAATGGTGGAACATCCTAATATAGTCAATCTCATTGAGGTGATTGATGATCCAGAGTCGGATGACTTCTACATGG
   |    | | |  |  |    || | ||| ||||    | | | |   |  | ||||  |   |     | |   |  |    |   |   ||  |  |||||||  || ||||||||| |||| |||||||||||||| ||||||||||| ||||||||||| ||| |  | ||| | ||||||||||
caataaaataactggaataaactttgc-ttgcttaaa--gaatctctatgtactgtttaacgtctcaattatctgacagcatcaccttttgtattggtgacagGTATCCATCATGAAAATGTTGGATCATCCTAATATAGTAAATCTCATTGAAGTGATTGATGACCCAAATGCAGATAAATTCTACATGG

upper sequence: GLYMA13G40190.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G60550.1 (Arabidopsis thaliana), 3'ss of exon 6
tttgttcattttatgatttgttacattgtttaactcaattttttggatgttctttactgatcctgcagtattttaatagacacaaatac-gttattttcagGTATTGATTATGAAAATGGTGGAACATCCTAATATAGTCAATCTCATTGAGGTGATTGATGATCCAGAGTCGGATGACTTCTACATGG
       ||  |  | ||| || ||||| | |||   |||| |      ||| ||   ||        ||| || ||   ||   || |  | | || |||||  |||||||||||||  |||| |||||||| || || || |||||||||||||| ||||| || ||  | ||| | || |||||||
-----gtatccttagtttttttgcattgctgaacagcatttctattggtttcattttagag---aagttatgtttatgctcatttatcctataacttacagGTTATGATTATGAAAATTTTGGAGCATCCTAACATCGTTAACCTCATTGAGGTGATAGATGACCCTGAAACTGATCATTTTTACATGG

upper sequence: GLYMA13G40190.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G45240.3 (Arabidopsis thaliana), 3'ss of exon 6
--------tttgttcattttatgatt--tgttaca---ttgtttaactcaattttttg--gatgttctttactgatc-ctgcagtattttaatagacacaa-----atacgttat--tttcagGTATTGATTATGAAAATGGTGGAACATCCTAATATAGTCAATCTCATTGAGGTGATTGATGATCCAGAGTCGGATGACTTCTACATGG
        | ||  ||   | | | |   ||  ||   | | ||    || |    ||  |||   |||||    ||  | ||| |   | ||  |||         ||  | ||  ||  ||||  ||||||||||||   |||| ||||||||||| || ||||||||||||||||||||||| || ||||  ||||| || |||||||
gtatcatttctgaacaacatttaactaacgtcccaagttggctttttccagtacaatgcagatagactttaggtttcatttcagaaaacttatgtacatgttttttgtatctcatcgttgtagGTTATGATTATGAAAACCCTGGAGCATCCTAATATCGTTAATCTCATTGAGGTGATTGATGACCCTGAGTTTGATGATTTTTACATGG

upper sequence: GLYMA13G40190.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0004g02990.t01 (Vitis vinifera), 3'ss of exon 6
---tttgttcattttatgatttgtt-acattgtttaactcaattttttggatgttctttactgatcctgcagtattttaatagacacaaatacgttatttt-cagGTATTGATTATGAAAATGGTGGAACATCCTAATATAGTCAATCTCATTGAGGTGATTGATGATCCAGAGTCGGATGACTTCTACATGG
   ||| ||| |||  ||  |   | ||| | |||||    ||  |    | |||||    ||||          || |||  |  || || | ||   ||  |||| ||||| ||||||||| || | ||||| |||||||||||||||||||||||||||||||| |||    | ||| ||||||| ||||
gtttttcttcgtttattgggtgaatgacactttttaatgacatcatcaacaagttctaccttgat-----gaaggttcaatttattcatatcctttgcgttgtagGTTTTGATCATGAAAATGTTGAACCATCCAAATATAGTCAATCTCATTGAGGTGATTGATGACCCAAGCACAGATCACTTCTATATGG

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|208119481|gb|GD914264.1|GD914264
EST:     AGCTTCGAGTTGCACCGTCTGAGACTGCTATGACTGATGTTCTACGTGAG                         GTATTGATTATGAAAATGGTGGAACATCCTAATATAGTCAATCTC
genomic: AGCTTCGAGTTGCACCGTCTGAGACTGCTATGACTGATGTTCTACGTGAGgtatatttct ... ttattttcagGTATTGATTATGAAAATGGTGGAACATCCTAATATAGTCAATCTC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatgttctttactgatcctgcagtattttaatagacacaaatacgttattttcagGTATTGATTATGAAAATGGTGGAACATCCTAATATAGTCAATCTCATTGAGGTGATTGATGATCCAGAGTCGGATGACTTCTACATGG
                                             ttattttc  CT-rich tract
                     agtattttaataga  TA-rich tract