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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgattattgatcagaacaatgcctttttagtgtcgcttctcatttgtgtttgcatgaattgacttttgttcaactcctctttggtctgcttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG

Basic information

species Glycine max
transcript GLYMA10G42940.3
intron # 1
splice site 3'
intron type U2

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|120533616|gb|EH261749.1|EH261749
EST:     CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTG                         TTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
genomic: CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTGgtgcgttttt ... ttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
EST: gi|120533425|gb|EH261558.1|EH261558
EST:     CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTG                         TTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
genomic: CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTGgtgcgttttt ... ttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
EST: gi|209697688|gb|BW655589.1|BW655589
EST:     CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTG                         TTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
genomic: CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTGgtgcgttttt ... ttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
EST: gi|120533188|gb|EH261321.1|EH261321
EST:     CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTG                         TTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
genomic: CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTGgtgcgttttt ... ttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
EST: gi|208058325|gb|GD856858.1|GD856858
EST:     CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTG                         TTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
genomic: CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTGgtgcgttttt ... ttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
EST: gi|13478635|gb|BG508033.1|BG508033
EST:     CACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTG                         TTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
genomic: CACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTGgtgcgttttt ... ttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
EST: gi|120532915|gb|EH261048.1|EH261048
EST:     CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTG                         TTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
genomic: CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTGgtgcgttttt ... ttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
EST: gi|120533316|gb|EH261449.1|EH261449
EST:     CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTG                         TTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
genomic: CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTGgtgcgttttt ... ttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
EST: gi|213596831|gb|DB964094.1|DB964094
EST:     CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTG                         TTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
genomic: CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTGgtgcgttttt ... ttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
EST: gi|120533627|gb|EH261760.1|EH261760
EST:     CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTG                         TTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
genomic: CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTGgtgcgttttt ... ttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
EST: gi|213591852|gb|DB973417.1|DB973417
EST:     CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGC--                         -T----GATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
genomic: CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTGgtgcgttttt ... ttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
EST: gi|19053577|gb|BM732244.1|BM732244
EST:     CTTAAACGTCTTTCGCTG                         TTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
genomic: CTTAAACGTCTTTCGCTGgtgcgttttt ... ttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
EST: gi|16346337|gb|BI971932.1|BI971932
EST:     CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTG                         TTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
genomic: CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTGgtgcgttttt ... ttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
EST: gi|209727398|gb|BW669851.1|BW669851
EST:     CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTG                         TTCCAAGATGGGTGTGACTGAGAACATTCCCGATATGGAGGAGGGTACCTT
genomic: CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTGgtgcgttttt ... ttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
EST: gi|120533687|gb|EH261820.1|EH261820
EST:     CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTG                         TTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
genomic: CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTGgtgcgttttt ... ttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT
EST: gi|213595962|gb|DB955998.1|DB955998
EST:     CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTG                         TTCCAAGATGGGTGTGGCTGAAAACATTCCCGATATGGAGGAGGGTACCTT
genomic: CTCCCTCACCCACGTCTCTCCCCGCTTCAGATCTTAAACGTCTTTCGCTGgtgcgttttt ... ttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgtgtttgcatgaattgacttttgttcaactcctctttggtctgcttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG
            aattgac  putative branch site (score: 3)
                                        tctgctt  putative PPT
         atgaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttgattattgatcagaacaatgcctttttagtgtcgcttctcatttgtgtttgcatgaattgacttttgttcaactcctctttggtctgcttgtctgaagTTCCAAGATGGGTGTGGCTGAGAACATTCCCGATATGGAGGAGGGTACCTTGGAGATTGGAATGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGAT