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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttatatatgaaaacaaaagtatatactatatgaaattaagatacaagttgacaatacaaatttgaattaatggattttatttttgtgaatgtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGTACAACTTCACCGCAAATGGTCCTGACCCTTCCATCGACCCTTCATTTCT

Basic information

species Glycine max
transcript GLYMA08G19180.1
intron # 2
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|254331628|gb|GR846045.1|GR846045
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTG                         GTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
EST: gi|254331629|gb|GR846046.1|GR846046
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTG                         GTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
EST: gi|254323726|gb|GR836065.1|GR836065
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTG                         GTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
EST: gi|192305378|gb|FG994256.1|FG994256
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTG                         GTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
EST: gi|254338806|gb|GR847523.1|GR847523
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTG                         GTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
EST: gi|254329729|gb|GR839282.1|GR839282
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTG                         GTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
EST: gi|13480293|gb|BG509636.1|BG509636
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTG                         GTGCACATACC
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACC
EST: gi|254339000|gb|GR847717.1|GR847717
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTG                         GTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
EST: gi|9902372|gb|BE611340.1|BE611340
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTG                         GTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
EST: gi|254323727|gb|GR836066.1|GR836066
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTG                         GTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
EST: gi|254329730|gb|GR839283.1|GR839283
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCA-CCTTGTTG                         GTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
EST: gi|254338999|gb|GR847716.1|GR847716
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTG                         GTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
EST: gi|6846463|gb|AW348753.1|AW348753
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTG                         GTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
EST: gi|151403721|gb|EV273531.1|EV273531
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTG                         GTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
EST: gi|15811819|gb|BE917598.1|BE917598
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACTTCGTCACCCTTGTTG                         GTGCACATACCATTGGT
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACCATTGGT
EST: gi|151404869|gb|EV274683.1|EV274683
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTG                         GTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
EST: gi|254338807|gb|GR847524.1|GR847524
EST:     AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTG                         GTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT
genomic: AAAGTTCACAGCAAAGGGACTCAACACTCAAGACCTCGTCACCCTTGTTGgtaattacgc ... gtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttgacaatacaaatttgaattaatggattttatttttgtgaatgtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGTACAACTTCACCGCAAATGGTCCTGACCCTTCCATCGACCCTTCATTTCT
                   aattaat  putative branch site (score: 3)
                   aattaatggattttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttatatatgaaaacaaaagtatatactatatgaaattaagatacaagttgacaatacaaatttgaattaatggattttatttttgtgaatgtatatatagGTGCACATACCATTGGTACTACAGCTTGCCAGTTCTTCAGTAACAGATTGTACAACTTCACCGCAAATGGTCCTGACCCTTCCATCGACCCTTCATTTCT

- - - - - aaacaaa
- - - - - - - - - - - - - - - -gaaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - -caataca