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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...atgattgctatccaagaagattacctatggagaaccaaaaaaaaaatgcttttataactgattccttttttttccttgtttcttcaatgaattgtatgaaGGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATCTCTGCAAGGAATGAAGCTGAGCTAAACCGAGTAAGGACACAGCTGAAA

Basic information

species Glycine max
transcript GLYMA18G47960.1
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|6726744|gb|AW311098.1|AW311098
EST:     GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATT                         GGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
genomic: GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATTggtataacaa ... attgtatgaaGGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
EST: gi|298188014|gb|HO031971.1|HO031971
EST:     GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATT                         GGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
genomic: GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATTggtataacaa ... attgtatgaaGGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
EST: gi|192305183|gb|FG993949.1|FG993949
EST:     GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATT                         GGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
genomic: GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATTggtataacaa ... attgtatgaaGGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
EST: gi|16347967|gb|BI973562.1|BI973562
EST:     GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATT                         GGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
genomic: GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATTggtataacaa ... attgtatgaaGGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
EST: gi|10845691|gb|BF071167.1|BF071167
EST:     GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATT                         GGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
genomic: GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATTggtataacaa ... attgtatgaaGGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
EST: gi|18848709|gb|BM567821.1|BM567821
EST:     GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATT                         GGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
genomic: GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATTggtataacaa ... attgtatgaaGGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
EST: gi|254342710|gb|GR858872.1|GR858872
EST:     GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATT                         GGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
genomic: GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATTggtataacaa ... attgtatgaaGGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
EST: gi|209725122|gb|BW663062.1|BW663062
EST:     GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATT                         GGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
genomic: GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATTggtataacaa ... attgtatgaaGGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
EST: gi|6724680|gb|AW309013.1|AW309013
EST:     GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATT                         GGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC
genomic: GGTTGTTTGGATTACTGGTGCTAGCCGTGGAATTggtataacaa ... attgtatgaaGGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgcttttataactgattccttttttttccttgtttcttcaatgaattgtatgaaGGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATCTCTGCAAGGAATGAAGCTGAGCTAAACCGAGTAAGGACACAGCTGAAA
                    tttttttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
atgattgctatccaagaagattacctatggagaaccaaaaaaaaaatgcttttataactgattccttttttttccttgtttcttcaatgaattgtatgaaGGGGAGATTCTGGCTAAACAGTTTGCAAGTTTAGGGGCCAAGCTTATTATCTCTGCAAGGAATGAAGCTGAGCTAAACCGAGTAAGGACACAGCTGAAA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGA
- - -tgctatc
- - - - - - - - - - - - - - - - aaccaaa
- - - - - - - - - - - - - - - - - - aaaaaaa
- - - - - - - - - - - - - - - - - - - - - - - tgctttt