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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtactttgtattaccttttgaaagccgggtacatgccatcatttccatacagtttctttaagttcctaattgctgccatttactcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT

Basic information

species Glycine max
transcript GLYMA10G42250.1
intron # 11
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|151403929|gb|EV273739.1|EV273739
EST:     ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAGgtactttgta ... tcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|151407658|gb|EV277473.1|EV277473
EST:     ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAGgtactttgta ... tcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|213605636|gb|DB976117.1|DB976117
EST:     ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAGgtactttgta ... tcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|14012021|gb|BG726943.1|BG726943
EST:     ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAGgtactttgta ... tcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|254336135|gb|GR841460.1|GR841460
EST:     ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAGgtactttgta ... tcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|254343718|gb|GR857474.1|GR857474
EST:     ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAGgtactttgta ... tcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|213587494|gb|DB979114.1|DB979114
EST:     ATCACTTGTTCAAACTTGTAACCAGTTGCAATTGCTGCATCAAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTCGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAGgtactttgta ... tcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|18714609|gb|BM522791.1|BM522791
EST:     ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAGgtactttgta ... tcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|19270079|gb|BM886335.1|BM886335
EST:     ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAGgtactttgta ... tcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|254331031|gb|GR842296.1|GR842296
EST:     ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAGgtactttgta ... tcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|16105352|gb|BI893092.1|BI893092
EST:     ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAG                         AGTGCCCAACCTAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAGgtactttgta ... tcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|254343474|gb|GR857230.1|GR857230
EST:     ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAGgtactttgta ... tcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|254343473|gb|GR857229.1|GR857229
EST:     ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAGgtactttgta ... tcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|17400839|gb|BM177621.1|BM177621
EST:     ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAGgtactttgta ... tcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|26059184|gb|CA802098.1|CA802098
EST:     ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAGgtactttgta ... tcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
EST: gi|193693127|gb|FK633732.1|FK633732
EST:     ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAG                         AGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC
genomic: ATCACTTGTTCAAACTTGTTACCAGTTGTTGTTGCTGCATCAAAAGACAGgtactttgta ... tcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatttccatacagtttctttaagttcctaattgctgccatttactcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT
                         tcctaat  putative branch site (score: 2)
                                     ccatttactccctttt  putative PPT
              tttctttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtactttgtattaccttttgaaagccgggtacatgccatcatttccatacagtttctttaagttcctaattgctgccatttactcccttttagAGTGCCCAACATAAAGTTCAATGTGGCAAAGGTATTAGAGTCCATCTTCCCCATCGTTGATCAGTCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG