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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtataatcaccaattgcatctgaaattgaagactaggaagctgcactgcacatatattatatatagtttaattttctccgtggcagcatgttttatatattttcacaagtttgattaattttgtacaaatgcagCTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATAGACAACAAGCCACTTTCGGAGGCAGTGCTGGAGACTATGATCGGAGAGA

Basic information

species Glycine max
transcript GLYMA20G38570.1
intron # 3
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|254313744|gb|GR831373.1|GR831373
EST:     CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGG                         CTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
genomic: CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGGgttagtataa ... acaaatgcagCTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
EST: gi|151413247|gb|EV283055.1|EV283055
EST:     CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGG                         CTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
genomic: CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGGgttagtataa ... acaaatgcagCTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
EST: gi|37996139|gb|CF807728.1|CF807728
EST:     CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGG                         CTTAGTTTCTCGAAAGATGAGACAATACC
genomic: CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGGgttagtataa ... acaaatgcagCTTAGTTTCTCGAAAGATGAGACAATACC
EST: gi|38192772|gb|CF921978.1|CF921978
EST:     CACCAGGCTCCACTGTTTTCTACAAACAACCACCCACTGGAACATTGGGG                         CTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
genomic: CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGGgttagtataa ... acaaatgcagCTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
EST: gi|192323410|gb|FK019001.1|FK019001
EST:     CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGG                         CTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
genomic: CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGGgttagtataa ... acaaatgcagCTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
EST: gi|254313745|gb|GR831374.1|GR831374
EST:     CACCAGGCTCCACTTTTTTCTACAAACAATCCCCCACTGGAACATTGGGG                         TTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
genomic: CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGGgttagtataa ... acaaatgcagCTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
EST: gi|7924175|gb|AW830201.1|AW830201
EST:     CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGG                         CTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
genomic: CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGGgttagtataa ... acaaatgcagCTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
EST: gi|58020340|gb|CX707082.1|CX707082
EST:     CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGG                         CTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
genomic: CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGGgttagtataa ... acaaatgcagCTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
EST: gi|16105139|gb|BI892879.1|BI892879
EST:     CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGG                         CTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
genomic: CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGGgttagtataa ... acaaatgcagCTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
EST: gi|192324631|gb|FK016822.1|FK016822
EST:     CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGG                         CTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
genomic: CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGGgttagtataa ... acaaatgcagCTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATA
EST: gi|15204524|gb|BI427292.1|BI427292
EST:     CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGG                         CTTAGTTTCTCGAAAGATGAGACAATACCAGAACAT
genomic: CACCAGGCTCCACTGTTTTCTACAAACAATCACCCACTGGAACATTGGGGgttagtataa ... acaaatgcagCTTAGTTTCTCGAAAGATGAGACAATACCAGAACAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtggcagcatgttttatatattttcacaagtttgattaattttgtacaaatgcagCTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATAGACAACAAGCCACTTTCGGAGGCAGTGCTGGAGACTATGATCGGAGAGA
                                 gattaat  putative branch site (score: 3)
        atgttttatatatttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtataatcaccaattgcatctgaaattgaagactaggaagctgcactgcacatatattatatatagtttaattttctccgtggcagcatgttttatatattttcacaagtttgattaattttgtacaaatgcagCTTAGTTTCTCGAAAGATGAGACAATACCAGAACATGAGCATGCAGTGATAGACAACAAGCCACTTTCGGAGGCAGTGCTGGAGACTATGATCGGAGAGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGGAGA