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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttgtatttgtctttgttaattttcaagttatagccaagataataatttccttgaagtggcttcaacgaaatcccatctacaaccttttgtgtttcttttttgagacagTTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTAAGTGACAATATTGAAGGAGGAGAAACATATTTTCCATTG

Basic information

species Glycine max
transcript GLYMA10G44480.3
intron # 9
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G44480.3 (Glycine max), 3'ss of exon 9
lower sequence: Vv05s0062g01220.t01 (Vitis vinifera), 3'ss of exon 9
gtaagttgtatttgtctttgttaattttcaagttatagccaagataataatttccttgaagtggcttcaacgaaatcccatctacaaccttttgtgtttcttttttgagacagTTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTAAGTGACAATATTGAAGGAGGAGAAACATATTTTCCATTG
|||||||  ||||  |  ||    ||||  ||| |               ||||||| ||     || | |    |   | |||  |     ||      ||||      ||||| ||||||||||||||||| || ||| |||| |||||||| || ||||||||||| ||| |||| || |||||||||||||| ||  ||
gtaagtt--atttacccctgcc--ttttttagtgacc-------------tttccttcaatc--ttttagcct--tgtgaactagtaatgagtgcaaagattttcaattgcagTTTAACTTGAAGCGTGGTGGTCAACGAGTAGCAACAATGCTCATTTATTTAAGTGATAATGTTGAGGGGGGAGAAACATATTTCCCTATG
















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|192297189|gb|FG988285.1|FG988285
EST:     ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACT                         TTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTA
genomic: ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACTgtaagttgta ... tttgagacagTTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTA
EST: gi|120493332|gb|EH221499.1|EH221499
EST:     ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACT                         TTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTA
genomic: ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACTgtaagttgta ... tttgagacagTTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTA
EST: gi|192303479|gb|FG994485.1|FG994485
EST:     ACGAGAAGAATCAATATTACAAACCACGTCATGACTATTTTTCTGATACT                         TTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTA
genomic: ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACTgtaagttgta ... tttgagacagTTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTA
EST: gi|192313359|gb|FK005131.1|FK005131
EST:     ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACT                         TTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTA
genomic: ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACTgtaagttgta ... tttgagacagTTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTA
EST: gi|5605677|gb|AI899838.1|AI899838
EST:     ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACT                         TTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTA
genomic: ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACTgtaagttgta ... tttgagacagTTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTA
EST: gi|192313358|gb|FK005130.1|FK005130
EST:     ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACT                         TTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTA
genomic: ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACTgtaagttgta ... tttgagacagTTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTA
EST: gi|151395369|gb|EV265240.1|EV265240
EST:     ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACT                         TTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTA
genomic: ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACTgtaagttgta ... tttgagacagTTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTA
EST: gi|209709077|gb|BW658793.1|BW658793
EST:     ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACT                         TTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTA
genomic: ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACTgtaagttgta ... tttgagacagTTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTA
EST: gi|10848367|gb|BF070868.1|BF070868
EST:     ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACT                         TTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCCCAATGCTTATGTTATT-
genomic: ACGAGAAGAATCAATATTACAAACCACATCATGACTATTTTTCTGATACTgtaagttgta ... tttgagacagTTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGT-ATTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aagtggcttcaacgaaatcccatctacaaccttttgtgtttcttttttgagacagTTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTAAGTGACAATATTGAAGGAGGAGAAACATATTTTCCATTG
                             ccttttgtgtttcttt  CT-rich tract
                                      tttctttttt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttgtatttgtctttgttaattttcaagttatagccaagataataatttccttgaagtggcttcaacgaaatcccatctacaaccttttgtgtttcttttttgagacagTTCAACTTGAAGCGTGGTGGGCAGCGAATAGCCACAATGCTTATGTATTTAAGTGACAATATTGAAGGAGGAGAAACATATTTTCCATTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA