Sequence
atgc intronic sequence ATGC exonic sequenceTTGGGTTCTGGATGCAACCCCTGGAAAAGTTCGAGCAGGTGGAGATGGAGAAGATCATCCAGCAGAACTCATATCCTTTCTAAGTACACTGCCAAATGAGgtagatctttaattgaatcttcttgtctttttgagaaaatgaatgcatagtgatgttaatttgatgcaatgtgttgcttttgttttggttccttaactta...
Basic information
species | Glycine max |
transcript | GLYMA11G01670.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G01670.1 (Glycine max), 5'ss of exon 9
lower sequence: AT4G10030.1 (Arabidopsis thaliana), 5'ss of exon 9
TTGGGTTCTGGATGCAACCCCTGGAAAAGTTCGAGCAGGTGGAGATGGAGAAGATCATCCAGCAGAACTCATATCCTTTCTAAGTACACTGCCAAATGAGgtagatctttaattgaatcttcttgtctttttgagaaaatgaatgcatagtgatgttaatttgatgcaatgtgttgcttttgttttg-gttccttaactta---------------------------------------------------------------------------------------
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TTGGGTATTGGATGCTACTCCTGGTAAAGTTCGTGCAGGAGGAGATGGAGAAGATCATCCACGAGAGCTTATATCATTTCTACGTAAATTGCCAAAAGTGgtaagc---taattgaacatgcatgtacaaatattacaa-gaatgaattttgctggacattacaagaagagtgttattgatttattgcaataagcagtttgaaccacctacatgttcttagaagtcagaagaaccaaaggatctagacagtttaagcttatgaacatcttttctgtttggtttaaaag
upper sequence: GLYMA11G01670.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv18s0001g06010.t01 (Vitis vinifera), 5'ss of exon 9
TTGGGTTCTGGATGCAACCCCTGGAAAAGTTCGAGCAGGTGGAGATGGAGAAGATCATCCAGCAGAACTCATATCCTTTCTAAGTACACTGCCAAATGAGgtagatctttaattgaatcttcttgtc---tttttgagaaaatgaatgcatagtgatgttaatttgatgcaatgtgttgcttttgttttggttccttaactta
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TTGGGTTCTAGATGCAACTCCTGGGAAAGTTCGTCCTGGTGGAGATGGAGAGGATCATCCAGAGGAACTAATATCTTTCCTTAGTAAAATGCCCAATGAGgtgaatttctggtccattgttgttttcctatttttaatataatgagttc-cattggagacataaacatctaat-tggcatcttcgtacggtgtatttctttt-
upper sequence: GLYMA11G01670.1 (Glycine max), 5'ss of exon 9
lower sequence: EFJ32975 (Selaginella moellendorffii), 5'ss of exon 7
TTGGGTTCTGGATGCAACCCCTGGAAAAGTTCGAGCAGGTGGAGATGGAGAAGATCATCCAGCAGAACTCATATCCTTTCTAAGTACACTGCCAAATGAGgtagatctttaattgaatcttcttgtctttttgagaaaatgaatgcatagtgatgttaatttgatgcaatgtgttgcttttgttttggttccttaactta
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ATGGATCCTGGATGCAACACCGGGAGAAGTACGAGCACGCGGAGGTGGTGAAGATCATCCAGCGGAACTCATTGAAGCCTTGCGAAGATTGCCTGCTCAGgtacgcttaaaatcagagccacttac-------aagcaaagtttacgttccag-----------------------------------------------
upper sequence: GLYMA11G01670.1 (Glycine max), 5'ss of exon 9
lower sequence: EFJ15850 (Selaginella moellendorffii), 5'ss of exon 7
TTGGGTTCTGGATGCAACCCCTGGAAAAGTTCGAGCAGGTGGAGATGGAGAAGATCATCCAGCAGAACTCATATCCTTTCTAAGTACACTGCCAAATGAGgtagatctttaattgaatcttcttgtctttttgagaaaatgaatgcatagtgatgttaatttgatgcaatgtgttgcttttgttttggttccttaactta
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ATGGATCCTGGATGCAACACCGGGAGAAATACGAGCAGGCGGAGGTGGTGAAGATCATCCAGCGGAACTCATTGAAGCCTTGCGAAGATTGCCTGCTCAGgtacgcttaaaatcagagccacttac-------aagcaaagtttacgttccag-----------------------------------------------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|16346287|gb|BI971882.1|BI971882EST: AAGATCATCCAGCAGAACTCATATCCTTTCTAAGTACACTGCCAAATGAG GTTCCTTCAAAATGGGATGTTCTCAGAGCTCTTATTCAACAAGGATTTTCC
genomic: AAGATCATCCAGCAGAACTCATATCCTTTCTAAGTACACTGCCAAATGAGgtagatcttt ... ctcaaggaagGTTCCTTCAAAATGGGATGTTCTCAGAGCTCTTATTCAACAAGGATTTTCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGGGTTCTGGATGCAACCCCTGGAAAAGTTCGAGCAGGTGGAGATGGAGAAGATCATCCAGCAGAACTCATATCCTTTCTAAGTACACTGCCAAATGAGgtagatctttaattgaatcttcttgtctttttgagaaaatgaatgcatagtgatgttaatttgatgcaatgtgttgcttttgttttggttccttaactta
- - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaaaatga