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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ggtgtaagatgaataatatttgttccaaggagaaagtttgggctctcaaatgtgtatatacatggaataattctgtgaagtccccccaccccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGAAGAGATAGGGGAGAGCTGGAGGATATAATGTTCAAGCTATTTGAAAGAC

Basic information

species Glycine max
transcript GLYMA06G03070.1
intron # 4
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|19935508|gb|BQ080469.1|BQ080469
EST:     TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAG                         GACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
genomic: TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAGgtacataatg ... ccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
EST: gi|58023918|gb|CX710659.1|CX710659
EST:     TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAG                         GACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
genomic: TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAGgtacataatg ... ccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
EST: gi|19935238|gb|BQ080268.1|BQ080268
EST:     TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAG                         GACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
genomic: TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAGgtacataatg ... ccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
EST: gi|192294408|gb|FG987337.1|FG987337
EST:     TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAG                         GACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
genomic: TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAGgtacataatg ... ccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
EST: gi|208272326|gb|GE065832.1|GE065832
EST:     TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAG                         GACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
genomic: TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAGgtacataatg ... ccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
EST: gi|19348661|gb|BM893193.1|BM893193
EST:     TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAG                         GACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
genomic: TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAGgtacataatg ... ccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
EST: gi|193393205|gb|FK358441.1|FK358441
EST:     TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAG                         GACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
genomic: TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAGgtacataatg ... ccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
EST: gi|37994152|gb|CF805898.1|CF805898
EST:     GTTTCATCCAATTCCAAG                         GACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
genomic: GTTTCATCCAATTCCAAGgtacataatg ... ccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
EST: gi|151398032|gb|EV267910.1|EV267910
EST:     TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAG                         GACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
genomic: TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAGgtacataatg ... ccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
EST: gi|209722481|gb|BW668756.1|BW668756
EST:     TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAG                         GACAAGAAGAAGACACAGCCGGTCAAGNCA-TCTGATACAAAGAGAACGAG
genomic: TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAGgtacataatg ... ccctttacagGACAAGAAGAAGACACAGCCGGTCAAG-CAATCTGATACAAAGAGAACGAG
EST: gi|23735091|gb|BU765812.1|BU765812
EST:     TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAG                         GACAAGAAGAAGACACAGCCGGTCAAGCATTTTGATACAAAGAGAACGAGA
genomic: TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAGgtacataatg ... ccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
EST: gi|58024109|gb|CX710850.1|CX710850
EST:     TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAG                         GACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
genomic: TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAGgtacataatg ... ccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
EST: gi|7147539|gb|AW509461.1|AW509461
EST:     TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAT                         GACAAGAAGAAGACACAGGCGGTCAAGCAATCTGATACAAAGAGAACGAGA
genomic: TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAGgtacataatg ... ccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
EST: gi|19345950|gb|BM890830.1|BM890830
EST:     TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAG                         GACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
genomic: TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAGgtacataatg ... ccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
EST: gi|192300028|gb|FG991846.1|FG991846
EST:     TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAG                         GACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
genomic: TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAGgtacataatg ... ccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGA
EST: gi|209702688|gb|BW675663.1|BW675663
EST:     TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAG                         GACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATAC
genomic: TAATGAGGCCAATGCCTGGAATGATTGGTCTAGTTTCATCCAATTCCAAGgtacataatg ... ccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcaaatgtgtatatacatggaataattctgtgaagtccccccaccccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGAAGAGATAGGGGAGAGCTGGAGGATATAATGTTCAAGCTATTTGAAAGAC
                                   tccccccacccccttt  CT-rich tract
         tatatacat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggtgtaagatgaataatatttgttccaaggagaaagtttgggctctcaaatgtgtatatacatggaataattctgtgaagtccccccaccccctttacagGACAAGAAGAAGACACAGCCGGTCAAGCAATCTGATACAAAGAGAACGAGAAGAGATAGGGGAGAGCTGGAGGATATAATGTTCAAGCTATTTGAAAGAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - ccaagga
- - - - - - - - - - - - - - - - - -gtttggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - catggaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttctgtg