Sequence
atgc intronic sequence ATGC exonic sequenceGTGGGGGAAAAAATTAAATTATGTAATAGCCATAGCAAAAGATGGAGTTTATGATGTCACCAAACGATACACAAGGAAGTGGCATGAGgtaggttttacaatttatgctctttctttcacaagcatgaggatcctgatttcctgataatttatgacgaatttttgtatctttttcaaaattgag
Basic information
species | Glycine max |
transcript | GLYMA03G40660.1 |
intron # | 12 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G40660.1 (Glycine max), 5'ss of exon 12
lower sequence: LOC_Os07g31460.2 (Oryza sativa), 5'ss of exon 11
GTGGGGGAAAAAATTAAATTATGTAATAGCCATAGCAAAAGATGGAGTTTATGATGTCACCAAACGATACACAAGGAAGTGGCATGAGgtagg---ttttacaat--ttatgctctttctttcacaagcatgaggatcctgatttcctgataattt-atgacgaatttttgtat-ctttttcaaaattgag-
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GTGGAACAAGAAACTAGATTATGTAATTGCTATTTCAAAAGATGGAGTACGTGATGTAACAAAACGCTACACCAGAAAGTGGCATGAGgtagaaaattttggcttggttaagacctgtgttgaggctgggtaggataggtgtgtttagaatgttttgatttttatttcatgcatactgcttgtcaattgcag
upper sequence: GLYMA03G40660.1 (Glycine max), 5'ss of exon 12
lower sequence: Vv14s0030g01930.t01 (Vitis vinifera), 5'ss of exon 12
GTGGGGGAAAAAATTAAATTATGTAATAGCCATAGCAAAAGATGGAGTTTATGATGTCACCAAACGATACACAAGGAAGTGGCATGAGgtag-------gttttacaatttatgc----tctttctttcacaagcatgaggatcctgatttc-ctgataatttatgacgaatttttgtatctttttcaaaattgag---------------------------
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CTGGAACAAGAAATTGAATTATATAATTGCTATCGCAAAAGATGGAGTTTATGATGTCACTAAACGCTACACAAGAAAGTGGCATGAGgtaataagattattgtaacattcattcatcatcagtttttcagtaaagggcaattatttattctgcccttcgcatacgtgcatgcttgctgttttgttcagtttttgatggggcacgaatattttcatgttacag
upper sequence: GLYMA03G40660.1 (Glycine max), 5'ss of exon 12
lower sequence: EFJ38670 (Selaginella moellendorffii), 5'ss of exon 8
GTGGGGGAAAAAATTAAATTATGTAATAGCCATAGCAAAAGATGGAGTTTATGATGTCACCAAACGATACACAAGGAAGTGGCATGAGgtaggttttacaatttatgctctttctttcacaagcatgaggatcct--gatttcctgataatttatgacgaatttttgtatctttttcaaaattgag
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ATGGGGAAAGAAGCTGAACTACGTCATT-CCGTTGCGAAAGATGGAGTTTATGATGTTACAAAACGATACACACGGAAGTGGGCAGAGgta-------caaactatattcctgtattt----gtgtggcgcttctttgactttgttgtaaaaggtagtgtctcgcag-------------------
upper sequence: GLYMA03G40660.1 (Glycine max), 5'ss of exon 12
lower sequence: EFJ38667 (Selaginella moellendorffii), 5'ss of exon 7
GTGGGGGAAAAAATTAAATTATGTAATAGCCATAGCAAAAGATGGAGTTTATGATGTCACCAAACGATACACAAGGAAGTGGCATGAGgtaggttttacaatttatgctctttctttcacaagcatgaggatcct--gatttcctgataatttatgacgaatttttgtatctttttcaaaattgag
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ATGGGGAAAGAAGCTGAACTACGTCATTGCCGTTGCGAAAGATGGAGTTTATGATGTTACAAAACGATACACACGGAAGTGGCCAGAGgta-------caaactatattcctgtattt----gtgtggcgcttctttgactttgttgtaaaag---------------------------------
upper sequence: GLYMA03G40660.1 (Glycine max), 5'ss of exon 12
lower sequence: EFJ38669 (Selaginella moellendorffii), 5'ss of exon 7
GTGGGGGAAAAAATTAAATTATGTAATAGCCATAGCAAAAGATGGAGTTTATGATGTCACCAAACGATACACAAGGAAGTGGCATGAGgtaggttttacaatttatgctctttctttcacaagcatgaggatcctgatttcctgataatttatgacgaatttttgtatctttttcaaaattgag
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ATGGGGAAAGAAGCTGAACTACGTCATT-CCGTTGCGAAAGATGGAGTTCATGATGTTACAAAACGATACACACGGAAGTGGGCAGAGgta-------caaactatattcttgtatttatgttgtaaaaggtagtgtctcgcag----------------------------------------
upper sequence: GLYMA03G40660.1 (Glycine max), 5'ss of exon 12
lower sequence: EFJ38668 (Selaginella moellendorffii), 5'ss of exon 7
GTGGGGGAAAAAATTAAATTATGTAATAGCCATAGCAAAAGATGGAGTTTATGATGTCACCAAACGATACACAAGGAAGTGGCATGAGgtaggttttacaatttatgctctttctttcacaagcatgaggatcct--gatttcctgataatttatgacgaatttttgtatctttttcaaaattgag
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ATGGGGAAAGAAGCTGAACTACGTCATTGCCGTTGCGAAAGATGGAGTTTATGATGTTACAAAACGATACACACGGAAGTGGCCAGAGgta-------cgaactatattcctgtattt----gtgtggcgcttctttgactttgttgtaaaag---------------------------------
upper sequence: GLYMA03G40660.1 (Glycine max), 5'ss of exon 12
lower sequence: EFJ31479 (Selaginella moellendorffii), 5'ss of exon 8
GTGGGGGAAAAAATTAAATTATGTAATAGCCATAGCAAAAGATGGAGTTTATGATGTCACCAAACGATACACAAGGAAGTGGCATGAGgtaggttttacaatttatgctctttctttcacaagcatgaggatcctgatttcctgataatttatgacgaatttttgtatctttttcaaaattgag
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ATGGGGAAAGAAGCTGAACTACGTCATTGCCGTTGCGAAAGATGGAGTTTATGATGTTACAAAACGATACACACGGAAGTGGCCAGAGgtacaaactatattgtgtggcgcttctttgactttgttgtaaaag---------------------------------------------------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|254349380|gb|GR860178.1|GR860178EST: AAGATGGAGTTTATGATGTCACCAAACGATACACAAGGAAGTGGCATGAG GTCCTATCTCGACGTACTATCATTACAGAGCCTTCTTTGTCATCTTTACTC
genomic: AAGATGGAGTTTATGATGTCACCAAACGATACACAAGGAAGTGGCATGAGgtaggtttta ... caaaattgagGTCCTATCTCGACGTACTATCATTACAGAGCCTTCTTTGTCATCTTTACTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGGGGGAAAAAATTAAATTATGTAATAGCCATAGCAAAAGATGGAGTTTATGATGTCACCAAACGATACACAAGGAAGTGGCATGAGgtaggttttacaatttatgctctttctttcacaagcatgaggatcctgatttcctgataatttatgacgaatttttgtatctttttcaaaattgag
- - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA