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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...attatccctcgtaagttaatgaagctataatttgtaagttgtgtaatttcatggattttgttgctaagtggaatttaatagttcatacttgcctgggtagGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG

Basic information

species Glycine max
transcript GLYMA18G00920.2
intron # 5
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|192312177|gb|FK005662.1|FK005662
EST:     AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATG                         GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
genomic: AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATGgtatgagtct ... gcctgggtagGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
EST: gi|254326113|gb|GR840705.1|GR840705
EST:     -ACTG-TGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATG                         GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
genomic: AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATGgtatgagtct ... gcctgggtagGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
EST: gi|208241879|gb|GE041073.1|GE041073
EST:     CTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATG                         GGTGCTAGGCCAGGA-TTTTCCATGATGACAAGTCACAG-AAAAAG
genomic: CTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATGgtatgagtct ... gcctgggtagGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
EST: gi|193340774|gb|FK308731.1|FK308731
EST:     AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATG                         GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
genomic: AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATGgtatgagtct ... gcctgggtagGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
EST: gi|193342494|gb|FK306110.1|FK306110
EST:     AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATG                         GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
genomic: AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATGgtatgagtct ... gcctgggtagGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
EST: gi|193409098|gb|FK373228.1|FK373228
EST:     AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATG                         GGTGCTAGGCCAGGATTTTTTCCATGATGACAAGTCACAGAAAAAAG
genomic: AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATGgtatgagtct ... gcctgggtagGGTGCTAGGCCAGGATTTTT-CCATGATGACAAGTCACAGAAAAAAG
EST: gi|193420265|gb|FK388245.1|FK388245
EST:     TGTTGGATCGATATGGCCTAGGGACGTAGCCTATTGGACCTGGGACAATG                         GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
genomic: TGTTGGATCGATATGGCCT-GGG-CGT-GCCTATTGGACCTGGGACAATGgtatgagtct ... gcctgggtagGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
EST: gi|193429121|gb|FK393215.1|FK393215
EST:     AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATG                         GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
genomic: AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATGgtatgagtct ... gcctgggtagGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
EST: gi|58022050|gb|CX708791.1|CX708791
EST:     AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATG                         GGTGCTAGCCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
genomic: AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATGgtatgagtct ... gcctgggtagGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
EST: gi|207687590|gb|GD668947.1|GD668947
EST:     AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATG                         GGTGCTAGGCCAGGATTTTTTCCATGATGACAAGTCACAGAAAAAAG
genomic: AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATGgtatgagtct ... gcctgggtagGGTGCTAGGCCAGGATTTTT-CCATGATGACAAGTCACAGAAAAAAG
EST: gi|192312176|gb|FK005661.1|FK005661
EST:     AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATG                         GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
genomic: AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATGgtatgagtct ... gcctgggtagGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
EST: gi|193357235|gb|FK321551.1|FK321551
EST:     AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATG                         GGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAA-G
genomic: AACTGTTGGATCGATATGGCCTGGGCGTGCCTATTGGACCTGGGACAATGgtatgagtct ... gcctgggtagGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttcatggattttgttgctaagtggaatttaatagttcatacttgcctgggtagGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG
                           atttaat  putative branch site (score: 4)
                                          cttgcct  putative PPT
                          aatttaatagttcata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
attatccctcgtaagttaatgaagctataatttgtaagttgtgtaatttcatggattttgttgctaagtggaatttaatagttcatacttgcctgggtagGGTGCTAGGCCAGGATTTTTCCATGATGACAAGTCACAGAAAAAAG

- - -ccctcgt
- - - - - - - - -aatgaag
- - - - - - - - - - - - - - - - - - agttgtg
- - - - - - - - - - - - - - - - - - - - - - - -ttcatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctaagtg