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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTGGCTTGGGAAGATTACACTGGAGACTTATATCTCCCAGATCCATATCTGGTTAAGgtactccgaagctgacatgctgcttttagcatttattgtgctttaccagatatcacatatttttctcctaatatgagttgaggggttgtttagtgcacat...

Basic information

species Glycine max
transcript GLYMA07G36550.1
intron # 13
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G36550.1 (Glycine max), 5'ss of exon 13
lower sequence: AT3G06550.1 (Arabidopsis thaliana), 5'ss of exon 13
TTGGCTTGGGAAGATTACACTGGAGACTTATATCTCCCAGATCCATATCTGGTTAAGgtactccgaagctgacatgctgcttttagcatttattgtgctt-taccagat--atcacatatttttctcctaatatgagttgaggggttgtttagtg-cacat-------------------------------
 |||||||| ||||| ||||||||||| |||||||||||| | ||||| ||| | |||||   |  |  |  | |||     ||  || || | | |    |   | ||  ||     |   | ||  ||  || || |     | | |||  || | |||                               
GTGGCTTGGAAAGATAACACTGGAGACATATATCTCCCAGTTTCATATATGGCTCAGgtatgtcacacttttcttgcccaagttctcaattgtagagtaagtgggaaattgatggtggagcatgctaatacaataagctattaagatttttcctgacccattgaactatgaaataatctaattcacccacag

upper sequence: GLYMA07G36550.1 (Glycine max), 5'ss of exon 13
lower sequence: Vv05s0077g00620.t01 (Vitis vinifera), 5'ss of exon 13
TTGGCTTGGGAAGATTACACTGGAGACTTATATCTCCCAGATCCATATCTGGTTAAGgtactc-cgaagctgacatgctgcttt-tagcatttattgtgctttac-cagatatcacatatttttctcctaatatgagttgagg-ggttgtttagtgcacat
 |||||||| ||||| |||||||||||||| ||||||||||||||||| ||||||||||| |  |   | | | |  |||||   ||   | |  |      | |  ||  ||  | | || ||||  | |  | || | |    || ||||         
ATGGCTTGGAAAGATAACACTGGAGACTTACATCTCCCAGATCCATATATGGTTAAGgtaatggctttgttcaaagactgctggatattttatcctagaacatgcatagggatggc-ttttattctattgaattcagctaatccagtcgttttagttg---
















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|51338448|gb|CO982314.1|CO982314
EST:     GGGAAGATTACACTGGAGACTTATATCTCCCAGATCCATATCTGGTTAAG                         GTCAGGTGTTCCAGATGGGCAACCCAAATTGTTGCTTTCCCTGATCCCAGA
genomic: GGGAAGATTACACTGGAGACTTATATCTCCCAGATCCATATCTGGTTAAGgtactccgaa ... ctgattttagGTCAGGTGTTCCAGATGGGCAACCCAAATTGTTGCTTTCCCTGATCCCAGA
EST: gi|17519074|gb|BM188116.1|BM188116
EST:     GGGAAGATTACACTGGAGACTTATATCTCCCAGATCCATATCTGGTTAAG                         GTCAGGTGTTCCAGATGGGCAACCCAAATTGTTGCTTTC
genomic: GGGAAGATTACACTGGAGACTTATATCTCCCAGATCCATATCTGGTTAAGgtactccgaa ... ctgattttagGTCAGGTGTTCCAGATGGGCAACCCAAATTGTTGCTTTC

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTGGCTTGGGAAGATTACACTGGAGACTTATATCTCCCAGATCCATATCTGGTTAAGgtactccgaagctgacatgctgcttttagcatttattgtgctttaccagatatcacatatttttctcctaatatgagttgaggggttgtttagtgcacat

- - - - GGAAGA
- - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggggttg