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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aattactcttgtaaaccctggtaactgctctggcagctggtgaaatttttaaattttattggtttcactttatcgatgttccttttcttggtttatgtagGTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAGCTATTTGAGTTGTGGGAAGGAAACACCCCAAATCTCAATGATAAAGATC

Basic information

species Glycine max
transcript GLYMA10G37870.3
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|208302771|gb|GE099122.1|GE099122
EST:     TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTG                         GTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
genomic: TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTGgtactaattt ... gtttatgtagGTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
EST: gi|23731130|gb|BU763675.1|BU763675
EST:     TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTG                         GTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
genomic: TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTGgtactaattt ... gtttatgtagGTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
EST: gi|6454103|gb|AW184851.1|AW184851
EST:     TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTG                         GTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
genomic: TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTGgtactaattt ... gtttatgtagGTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
EST: gi|193555988|gb|FK514725.1|FK514725
EST:     TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTG                         GTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
genomic: TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTGgtactaattt ... gtttatgtagGTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
EST: gi|58014743|gb|CX701485.1|CX701485
EST:     TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTG                         GTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
genomic: TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTGgtactaattt ... gtttatgtagGTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
EST: gi|10254357|gb|BE822123.1|BE822123
EST:     TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTG                         GTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
genomic: TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTGgtactaattt ... gtttatgtagGTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
EST: gi|23057340|gb|BU578014.1|BU578014
EST:     TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTG                         GTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
genomic: TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTGgtactaattt ... gtttatgtagGTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
EST: gi|254314115|gb|GR831744.1|GR831744
EST:     TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTG                         GTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
genomic: TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTGgtactaattt ... gtttatgtagGTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
EST: gi|192324206|gb|FK017937.1|FK017937
EST:     TGGCAGCCGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTG                         GTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG
genomic: TGGCAGCTGGTGTCTTGACCCACTCACCTCAACCTGCACTTCTTTATCTGgtactaattt ... gtttatgtagGTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttttaaattttattggtttcactttatcgatgttccttttcttggtttatgtagGTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAGCTATTTGAGTTGTGGGAAGGAAACACCCCAAATCTCAATGATAAAGATC
                                 ttccttttcttggttt  CT-rich tract
     aaattttattggttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aattactcttgtaaaccctggtaactgctctggcagctggtgaaatttttaaattttattggtttcactttatcgatgttccttttcttggtttatgtagGTGCCTTCTACTTTGGGACCTGTAGTTGTGATATCTTGGATGAAAAGGGAGCTATTTGAGTTGTGGGAAGGAAACACCCCAAATCTCAATGATAAAGATC

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