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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtcacaagcctccagatcttttaataaaaaagtgcataaaacacctgtggctgaatgatatatgttcatcaattgagatttttgtttactgtacaaaggacatccaatgttaatttcagctgttacactgcagGCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGGAAGCTTTCATTTGAAAAGGATACCGTTAGCAGAGGAGGCTG

Basic information

species Glycine max
transcript GLYMA19G36130.1
intron # 6
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|308098786|gb|HO760527.1|HO760527
EST:     CTGGAGTTTTAACCACATTTACCCCCAAT                         GCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGG
genomic: CTGGAGTTTTAACCACATTTACCCCCAATgtaagtcaca ... tacactgcagGCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGG
EST: gi|120495842|gb|EH224009.1|EH224009
EST:     ATGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTACCCCCAAT                         GCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGG
genomic: ATGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTACCCCCAATgtaagtcaca ... tacactgcagGCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGG
EST: gi|151403056|gb|EV272866.1|EV272866
EST:     ATGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTACCCCCAAT                         GCAG-TCTTAAGATAATACAGCTATATATGGAAAGGTATCGACA-GATTGG
genomic: ATGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTACCCCCAATgtaagtcaca ... tacactgcagGCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGG
EST: gi|192297273|gb|FG990621.1|FG990621
EST:     ATGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTACCCCCAAT                         GCAGGTCTTAAGATAATACAGCTATATATGGAAAGGTATCGACAAGATTGG
genomic: ATGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTACCCCCAATgtaagtcaca ... tacactgcagGCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGG
EST: gi|120496088|gb|EH224255.1|EH224255
EST:     TGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTNACCCC-AAT                         GCAGGTCTTAAGATAATACAGNTATATATGGAAGGGTATCGA
genomic: TGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTT-ACCCCCAATgtaagtcaca ... tacactgcagGCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGA
EST: gi|9902843|gb|BE611811.1|BE611811
EST:     ATGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTACCCCCAAT                         GCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGG
genomic: ATGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTACCCCCAATgtaagtcaca ... tacactgcagGCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGG
EST: gi|27425152|gb|CA936672.1|CA936672
EST:     ATGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTACCCCCAAT                         GCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGG
genomic: ATGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTACCCCCAATgtaagtcaca ... tacactgcagGCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGG
EST: gi|117557702|gb|EG702087.1|EG702087
EST:     ATGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTACCCCCAAT                         GCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGG
genomic: ATGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTACCCCCAATgtaagtcaca ... tacactgcagGCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGG
EST: gi|120495642|gb|EH223809.1|EH223809
EST:     ATGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTACCCCCAAT                         GCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGG
genomic: ATGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTACCCCCAATgtaagtcaca ... tacactgcagGCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGG
EST: gi|31473394|gb|CD415407.1|CD415407
EST:     ATGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTACCCCCAAT                         GCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGG
genomic: ATGAGGCCTTAAATTTTGTTTCTGGAGTTTTAACCACATTTACCCCCAATgtaagtcaca ... tacactgcagGCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttgtttactgtacaaaggacatccaatgttaatttcagctgttacactgcagGCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGGAAGCTTTCATTTGAAAAGGATACCGTTAGCAGAGGAGGCTG
                             tgttaat  putative branch site (score: 3)
                           aatgttaattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagtcacaagcctccagatcttttaataaaaaagtgcataaaacacctgtggctgaatgatatatgttcatcaattgagatttttgtttactgtacaaaggacatccaatgttaatttcagctgttacactgcagGCAGGTCTTAAGATAATACAGCTATATATGGAAGGGTATCGACAAGATTGGAAGCTTTCATTTGAAAAGGATACCGTTAGCAGAGGAGGCTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GAGGAG