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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgatctagtgatcctactatagtagcaatttcatgtaactttagattacactctcgtgctcacatgcacttttcgtgtagggccttgaagtcttcagatatgactttgttaatatatcttcatgtgcagGTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATGGCTTTGATGGTGGTGAAGGCATTCCTCTTAGACGGCAAGAATCCATGAG

Basic information

species Glycine max
transcript GLYMA16G00560.1
intron # 8
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|207747556|gb|GD721675.1|GD721675
EST:     CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATG                         GTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
genomic: CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
EST: gi|38193345|gb|CF922551.1|CF922551
EST:     CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATG                         GTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
genomic: CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
EST: gi|193442913|gb|FK408379.1|FK408379
EST:     CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATG                         GTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
genomic: CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
EST: gi|58020349|gb|CX707091.1|CX707091
EST:     CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATG                         GTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
genomic: CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
EST: gi|193601159|gb|FK551704.1|FK551704
EST:     CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATG                         GTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
genomic: CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
EST: gi|193621384|gb|FK572300.1|FK572300
EST:     CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATG                         GTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
genomic: CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
EST: gi|51343212|gb|CO983945.1|CO983945
EST:     CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATG                         GTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
genomic: CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
EST: gi|58016807|gb|CX703549.1|CX703549
EST:     CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATG                         GTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
genomic: CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
EST: gi|6848018|gb|AW350308.1|AW350308
EST:     CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATG                         GTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG
genomic: CATTCTATCAGGAACTTTTCTTCTTCACAAAACTAAGGATATGGCTGATGgtatgatcta ... tcatgtgcagGTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgtagggccttgaagtcttcagatatgactttgttaatatatcttcatgtgcagGTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATGGCTTTGATGGTGGTGAAGGCATTCCTCTTAGACGGCAAGAATCCATGAG
                                tgttaat  putative branch site (score: 3)
                                        tatcttc  CT-rich tract
                              tttgttaatatatctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgatctagtgatcctactatagtagcaatttcatgtaactttagattacactctcgtgctcacatgcacttttcgtgtagggccttgaagtcttcagatatgactttgttaatatatcttcatgtgcagGTTTACAAACATCTTTATCTATTAGACTTCCTAAGCATTCAGAAGAGGATGGCTTTGATGGTGGTGAAGGCATTCCTCTTAGACGGCAAGAATCCATGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAAGA