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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattatccatttaaatttacacaaaattcttttacccttttagttcttgtttttttgtttactgaccttattatgttaatgcttcattgtgatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATATTTCTAACAAAG

Basic information

species Glycine max
transcript GLYMA16G19270.1
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|7234392|gb|AW569730.1|AW569730
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
EST: gi|254339193|gb|GR847910.1|GR847910
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
EST: gi|11413592|gb|BF425603.1|BF425603
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
EST: gi|192303525|gb|FG995931.1|FG995931
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
EST: gi|38191192|gb|CF920398.1|CF920398
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
EST: gi|33388247|gb|CA851454.1|CA851454
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
EST: gi|254339194|gb|GR847911.1|GR847911
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
EST: gi|254320942|gb|GR827391.1|GR827391
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
EST: gi|7589011|gb|AW704794.1|AW704794
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
EST: gi|208157710|gb|GD953347.1|GD953347
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGTCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGGAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
EST: gi|254342034|gb|GR853171.1|GR853171
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
EST: gi|193459901|gb|FK422652.1|FK422652
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGAT
EST: gi|254349082|gb|GR860354.1|GR860354
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
EST: gi|14260041|gb|BG882949.1|BG882949
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
EST: gi|27424668|gb|CA936188.1|CA936188
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCATAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
EST: gi|15000946|gb|BI321760.1|BI321760
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
EST: gi|193607144|gb|FK557421.1|FK557421
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGTCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGGAGAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGAT
EST: gi|192303524|gb|FG995930.1|FG995930
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
EST: gi|19053736|gb|BM732403.1|BM732403
EST:     GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAG                         CCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT
genomic: GTTCTCTCTTACGTGGTGAATGAAGTGGTTGTCAATGGGCTTGCCAACAGgtacgtacgt ... gatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cttgtttttttgtttactgaccttattatgttaatgcttcattgtgatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATATTTCTAACAAAG
                      ttattatgttaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattatccatttaaatttacacaaaattcttttacccttttagttcttgtttttttgtttactgaccttattatgttaatgcttcattgtgatttcacagCCCTGCATTTCAGAGGTTTGCAGTGAGGACATCAAAAAGAATTGAAGATATTTCTAACAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - ccattta
- - - - - - - - - acacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgacct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcttca