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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtgatgaaatcgcgactacaaatcttaaacttttggctatagcttgggatgcatttaaccccttctaatcttaattattttcccttggttgcctttgtagACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG

Basic information

species Glycine max
transcript GLYMA16G10880.3
intron # 2
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|120491370|gb|EH219537.1|EH219537
EST:     GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAG                         ACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
genomic: GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAGgtatgctttg ... gcctttgtagACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
EST: gi|22524450|gb|BU083261.1|BU083261
EST:     GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAG                         ACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
genomic: GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAGgtatgctttg ... gcctttgtagACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
EST: gi|20812913|gb|BQ297391.1|BQ297391
EST:     GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAG                         ACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
genomic: GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAGgtatgctttg ... gcctttgtagACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
EST: gi|7028945|gb|AW458728.1|AW458728
EST:     GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAG                         ACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
genomic: GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAGgtatgctttg ... gcctttgtagACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
EST: gi|209728984|gb|BW651747.1|BW651747
EST:     GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAG                         ACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
genomic: GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAGgtatgctttg ... gcctttgtagACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
EST: gi|120495789|gb|EH223956.1|EH223956
EST:     GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAG                         ACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
genomic: GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAGgtatgctttg ... gcctttgtagACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
EST: gi|12689187|gb|BG155523.1|BG155523
EST:     GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAG                         ACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
genomic: GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAGgtatgctttg ... gcctttgtagACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
EST: gi|120529139|gb|EH257273.1|EH257273
EST:     GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAG                         ACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
genomic: GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAGgtatgctttg ... gcctttgtagACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
EST: gi|120531755|gb|EH259888.1|EH259888
EST:     GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAG                         ACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
genomic: GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAGgtatgctttg ... gcctttgtagACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
EST: gi|19270067|gb|BM886323.1|BM886323
EST:     GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAG                         ACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
genomic: GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAGgtatgctttg ... gcctttgtagACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
EST: gi|6914782|gb|AW396312.1|AW396312
EST:     GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAG                         ACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
genomic: GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAGgtatgctttg ... gcctttgtagACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
EST: gi|6134837|gb|AW133230.1|AW133230
EST:     GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAG                         ACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
genomic: GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAGgtatgctttg ... gcctttgtagACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
EST: gi|20813349|gb|BQ297827.1|BQ297827
EST:     GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAG                         ACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT
genomic: GGCAAAAACCTATTTCTGTCTTAGGATCTACGGGTTCAATTGGAACTCAGgtatgctttg ... gcctttgtagACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gggatgcatttaaccccttctaatcttaattattttcccttggttgcctttgtagACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG
                                           ttgccttt  CT-rich tract
                 ttctaatcttaattat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgatgaaatcgcgactacaaatcttaaacttttggctatagcttgggatgcatttaaccccttctaatcttaattattttcccttggttgcctttgtagACACTGAGTATAGTGGCTGAGTTCCCAGAAAGATTTAAAGTTGTGAGCCTTGCTGCTGGCTCTAATATTACTCTTCTTGCTGACCAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - -gactaca
- - - - - - - - - - - - - - -cttttgg
- - - - - - - - - - - - - - - - - - - - - - - ggatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcccttg