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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTCTTGCCAAAGATCTTCCTTGGAAATTGAAAGAATCACGTGTACTAGAGATATTGCAAGCGgttagtatgtttgatcttttacaagaaacacacattgttttgtttgctgcttctcagcatgtctaaaatttgttaggcatgaaatttggtgattaatatt...

Basic information

species Glycine max
transcript GLYMA16G23870.1
intron # 12
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA16G23870.2 (Glycine max), 5'ss of exon 12
lower sequence: AT5G66210.2 (Arabidopsis thaliana), 5'ss of exon 11
GCTCTTGCCAAAGATCTTCCTTGGAAATTGAAAGAATCACGTGTACTAGAGATATTGCAAGCGgttagtatgtttgatcttttacaagaaacacacattgttttgtttgctgcttctcagcat-gtctaaaatttgttaggcatgaaatttggtgattaatatt-----
|| |||||||||||||||||||||||| ||||||| ||||| ||    |||||  |  |||||||   ||| |||  | |||| ||    |    |||   |  |  |            | | || | | | |     |   || | ||   |  ||  |  |     
GCACTTGCCAAAGATCTTCCTTGGAAACTGAAAGACTCACGAGTTGCTGAGATCCTTGAAGCGgtagttatatttt-tgttttccattgcaattgcatctctgggggtatcagagggagacgtagtttcataatgagccgttgtgtacttgtatctttgctggtcacag
















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|207840105|gb|GD813056.1|GD813056
EST:     AATCACGTGTACTAGAGATATTGCAAGCG                         ATAGACAACAACACTGATGGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGC
genomic: AATCACGTGTACTAGAGATATTGCAAGCGgttagtatgt ... ttatttgcagATAGACAACAACACTGAT-GGTCTAGTGGATTTCCGGGAGTTTGTAGCGGC
EST: gi|208252551|gb|GE046129.1|GE046129
EST:     ATCTTCCTTGGAAATTGAAAGAATCACGTGTACTAGAGATATTGCAAGCG                         ATAGACAACAACACTGATGGTCCAGTGGATTTCCG
genomic: ATCTTCCTTGGAAATTGAAAGAATCACGTGTACTAGAGATATTGCAAGCGgttagtatgt ... ttatttgcagATAGACAACAACACTGATGGTCTAGTGGATTTCCG
EST: gi|193718866|gb|FK655244.1|FK655244
EST:     CACGTGTACTAGAGATATTGCAAGCG                         ATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGCT
genomic: CACGTGTACTAGAGATATTGCAAGCGgttagtatgt ... ttatttgcagATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGCT
EST: gi|208260162|gb|GE059002.1|GE059002
EST:     ATCTTCCTTGGAAATTGAAAGAATCACGTGTACTAGAGATATTGCAAGCG                         ATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGCT
genomic: ATCTTCCTTGGAAATTGAAAGAATCACGTGTACTAGAGATATTGCAAGCGgttagtatgt ... ttatttgcagATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGCT
EST: gi|22931966|gb|BU549105.1|BU549105
EST:     ACTAGAGATATTGCAAGCG                         ATAGACAACAACACTGATNNTNNAGTGGATTTCCGGGAGTTTGTAGCGGCT
genomic: ACTAGAGATATTGCAAGCGgttagtatgt ... ttatttgcagATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGCT
EST: gi|16348882|gb|BI974477.1|BI974477
EST:     ATCTTCCTTGGAAATTGAAAGAATCACGTGTACTAGAGATATTGCAAGCG                         ATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGCT
genomic: ATCTTCCTTGGAAATTGAAAGAATCACGTGTACTAGAGATATTGCAAGCGgttagtatgt ... ttatttgcagATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGCT
EST: gi|193527749|gb|FK485939.1|FK485939
EST:     CACGTGTACTAGAGATTATTTGTCAAGCG                         ATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGC
genomic: CACGTGTACTAGAGA-TA-TTG-CAAGCGgttagtatgt ... ttatttgcagATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGC
EST: gi|9204567|gb|BE330791.1|BE330791
EST:     ATCTTCCTTGGAAATTGAAAGAATCACGTGTACTAGAGATATTGCAAGCG                         ATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGCT
genomic: ATCTTCCTTGGAAATTGAAAGAATCACGTGTACTAGAGATATTGCAAGCGgttagtatgt ... ttatttgcagATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGCT
EST: gi|193432383|gb|FK394769.1|FK394769
EST:     ATCTTCCTTGGAAATTGAAAGAATCACGTGTACTAGAGATATTGCAAGCG                         ATAGACAACAACACTGATGGTCTAGTG
genomic: ATCTTCCTTGGAAATTGAAAGAATCACGTGTACTAGAGATATTGCAAGCGgttagtatgt ... ttatttgcagATAGACAACAACACTGATGGTCTAGTG
EST: gi|11274128|gb|BF324496.1|BF324496
EST:     ATCTTCCTTGGAAATTGAAAGAATCACGTGTACTAGAGATATTGCAAGCG                         ATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGCT
genomic: ATCTTCCTTGGAAATTGAAAGAATCACGTGTACTAGAGATATTGCAAGCGgttagtatgt ... ttatttgcagATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGCT
EST: gi|193630006|gb|FK573298.1|FK573298
EST:     GTACTAGAGATATTGCAAGCG                         ATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGCT
genomic: GTACTAGAGATATTGCAAGCGgttagtatgt ... ttatttgcagATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGCT
EST: gi|193490437|gb|FK453364.1|FK453364
EST:     GTACTAGAGATATTGCAAGCG                         ATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGCT
genomic: GTACTAGAGATATTGCAAGCGgttagtatgt ... ttatttgcagATAGACAACAACACTGATGGTCTAGTGGATTTCCGGGAGTTTGTAGCGGCT

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTCTTGCCAAAGATCTTCCTTGGAAATTGAAAGAATCACGTGTACTAGAGATATTGCAAGCGgttagtatgtttgatcttttacaagaaacacacattgttttgtttgctgcttctcagcatgtctaaaatttgttaggcatgaaatttggtgattaatatt

- - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acaagaaa