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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttttctcttccaattttctttgcttgtttgactgcttttcttttggttctttagtatggcagcttctaactccccaattgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACGGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA

Basic information

species Glycine max
transcript GLYMA05G32100.1
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA05G32100.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM5G840940_T01 (Zea mays), 3'ss of exon 1
gtaagttttctcttccaattttctttgcttgtttgactg-cttttcttttggttctttagtatggcagcttctaactccccaattgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACGGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA
||| || |    |       ||||    || | |||  | | ||     | ||  | |      |   || |    ||  |   |     |||||||||||||||||  | |||||||| ||||| ||||||||||| || || || ||||||||||||||  | ||  | ||||| |||||||| ||  |  
gtatgtatggcatgaattcattctaactttatctgaaagacattgaagatagtattctgaacaagtttctgcattatctacttctctttgcagATTAACATGAAAGGTCTTGATGGGATCCAAGGACCAATATATGTTGGGACTGGTTGTGTTTTCAGAAGACATGCTTTGTATGGTTATGATGCCCCAACTG

upper sequence: GLYMA05G32100.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G39350.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaagttttctcttccaattttctttgcttgtttgactgcttttcttttggttctttagtatggcagcttctaactccccaat-tgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACGGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA
||| || | ||  ||   ||| ||||| || | |   || |||  |  |  | || |  | |  ||  |  ||         | || ||||||||||||||||||||  | |||||||||||||| || ||||||||||| || || ||||| || |||||  | || |||||||| | |||||||||    |
gtatgtgtccttatctcttttgctttgtttctgtttatgttttagtgcttttcctct--tttctcatttgatattgttttggtgtggaaacagATTAACATGAAAGGTCTTGATGGGATACAAGGACCGATATATGTCGGGACAGGTTGTGTGTTTAGAAGACAGGCTCTTTATGGTTTTGATGCACCAAAGA

upper sequence: GLYMA05G32100.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G09870.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaagttttctcttccaattttctttgcttgtttgactgcttttcttttggttctttagtatggcagcttctaactccccaattg--aaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACGGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA
||||||   |  |||    |  |        |||      || |   |  | ||||   ||    |  || | |     ||||||   ||||||||||| |||||||| ||||||||  ||||||| || ||||| || ||||| || |||||||| || ||  | ||||||||||||| |||||| ||    |
gtaagtacaccattctctatcaccacatccttttcttgagttattcatctgctcttacttacca-aatttttgatcttgcaattgtcgaaacagATTAATATGAAAGGTTTGGATGGATTACAAGGGCCTATATACGTGGGAACCGGGTGTGTTTTTAGGAGACAAGCACTTTATGGATTTGATGCGCCAAAAA

upper sequence: GLYMA05G32100.1 (Glycine max), 3'ss of exon 10
lower sequence: AT5G64740.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaagttttctcttccaattttctttgcttgtttgactgcttttcttttggttctt-tagtatggcagcttctaactccccaattgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACGGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA
||||||     |  ||| ||| || |     | |  |   |||||||  | ||  | ||| ||  || ||  | | ||   | ||    |||||| || |||||||| ||||||||| ||||||| || ||||| ||||| || || ||||||||||| ||| | || ||||| |||| |||||||||    |
gtaagtacagcca-ccactttcctat-----tgtatccctttttcttgagatttctgtagaataccaactaatgaatctttattt----acagATCAATATGAAAGGTTTGGATGGGCTACAAGGGCCTATATACGTCGGTACAGGTTGTGTTTTCAGGAGGCAAGCGCTTTACGGATTTGATGCACCGAAGA

upper sequence: GLYMA05G32100.1 (Glycine max), 3'ss of exon 10
lower sequence: AT2G21770.1 (Arabidopsis thaliana), 3'ss of exon 9
gtaagttttctcttccaattttctttgcttgtttgactgcttttcttttggttctttagtatggcagcttctaactccccaattgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACGGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA
||| | ||||  |   | || |||||||  |||   ||  || | ||   | ||  |  |        |  |  |||    |||  |||||||| ||||||||||| || ||||| |||||||| || |||||||| || || || ||||| ||||||||| | ||||||||||||| |||||||||    |
gtatgatttccatggaatttgtctttgc--gttgttctatttatgttacagctcccttctc-----attggtgtctctatgattataaacagATCAACATGAAAGGTTTAGATGGCATACAAGGACCGATATATGTGGGGACCGGGTGTGTCTTCAGAAGGCAAGCACTTTATGGATTTGATGCACCAAAGA

upper sequence: GLYMA05G32100.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv07s0031g02060.t01 (Vitis vinifera), 3'ss of exon 10
gtaagttttctcttccaattttctttgcttgtttgactgcttttcttttggttctttagtatggcagcttctaactccccaattgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACGGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA
||| || | |        |||||||| ||| |||  |   || |  |||  |   | | |  |  ||||    | |   ||||||||| ||||||||||||| ||| || ||||| |||||||| || |||||||| ||||| || ||||| ||||||||| | ||||||||||| |||||||| |||| ||
gtatgtatacct------ttttcttttcttttttttccctttattgtttcttatatcattgggaaagct---gatttttcaattgaaa-cagATTAACATGAGAGGCTTAGATGGTATACAAGGACCGATATATGTTGGAACCGGTTGTGTCTTCAGAAGGCAAGCACTTTATGGTTATGATGCTCCTGTCA

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|208233214|gb|GE034007.1|GE034007
EST:     GGTATTTTTCGAT                         ATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACT
genomic: GGTATTTTTCGATgtaagttttc ... ttgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgcttttcttttggttctttagtatggcagcttctaactccccaattgaaaacagATTAACATGAAAGGATTGGATGGGATACAAGGTCCAATATATGTCGGAACGGGATGTGTTTTCAGAAGGTACGCACTTTATGGATATGATGCACCTGCCA
                               ttctaac  putative branch site (score: 1)
                                           aattgaaaa  TA-rich tract