Sequence
atgc intronic sequence ATGC exonic sequenceGTGTCTGGCCAAGCATCAAGGAAGGGCTCATAAGTTGGCTATTGAGCCTGGTAGCCCTCATATTTTTTATACCTGTGGTGAAGATGGATTAGTGCAGCGTgtgagtcattcatttctttcctactttttttgttattttatttattgtttatcctctcactaagtgttttcttttgacag
Basic information
species | Glycine max |
transcript | GLYMA20G23960.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G23960.1 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os10g39760.1 (Oryza sativa), 5'ss of exon 3
GTGTCTGGCCAAGCATCAAGGAAGGGCTCATAAGTTGGCTATTGAGCCTGGTAGCCCTCATATTTTTTATACCTGTGGTGAAGATGGATTAGTGCAGCGTgt---gagtcattcatttctttcctacttttt---ttgttattttatttattgtttatcctctcactaagtgttttcttttgacag-----------------------
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ATTGCTAGGCGATCATGATGGAAGGGCTCACAAGTTGGCCATTGAGCCTGGCAGTCCTTATATTTTCTATAGCTGCGGCGAAGATGGGCTTGTTCAACATgtagggaaccacggaccccctccctccttcacaaatgctcattttcagctatgtataaaatgcaaatgaatttcttactgtataactagccacttcccttcttgtgcag
upper sequence: GLYMA20G23960.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G123709_T03 (Zea mays), 5'ss of exon 3
-----------------------GTGTCTGGCCAAGCATCAAGGAAGGGCTCATAAGTTGGCTATTGAGCCTGGTAGCCCTCATATTTTTTATACCTGTGGTGAAGATGGATTAGTGCAGCGTgtgagtcattcatttctttcctactttttttgttattttatttattgtttatcctctcactaagtgttttcttttgacag
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GATGCTGGAGACGTGTCCACAACATTGCTTGGTGAACATGAGGGAAGGGCTCACAATTTGGCTATAGAGCCTGGTAGTCCTTACATTTTCTACAGCTGTGgtgaggaaggctttgttcaacatgtaagccattaaacaggtgc--agtatttcaggtgttt-gtaaactgatatataaccaagtgtaatctttcttgtg-cag
upper sequence: GLYMA20G23960.1 (Glycine max), 5'ss of exon 3
lower sequence: AC209819.3_FGT007 (Zea mays), 5'ss of exon 3
--------------------------------------------GTGTCTGGCCAAGCATCAAGGAAGGGCTCATAAGTTGGCTATTGAGCCTGGTAGCCCTCATATTTTTTATACCTGTGGTGAAGATGGATTAGTGCAGCGTgtgagtcattcatttctttcctactttttttgttattttatttattgtttatcctctcactaagtgttttcttttgacag
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GTGAGGCTTGCCAAGATACAGGATGCTGGAGACGTGTCCAAAACATTGCTTGGTGAACATGAGGGAAGGGCTCACAATTTGGCTATAGAGCCTGgtagtccttaaattttctacagctgtggtgaggaaggctctcttctacatnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnnn------------------------------
upper sequence: GLYMA20G23960.1 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G123709_T01 (Zea mays), 5'ss of exon 3
GTGTCTGGCCAAGCATCAAGGAAGGGCTCATAAGTTGGCTATTGAGCCTGGTAGCCCTCATATTTTTTATACCTGTGGTGAAGATGGATTAGTGCAGCGTgtgagtcattcatttctttcctactttttttgttattttatttattgtttatcctctcactaagtgttttcttttgacag
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ATTGCTTGGTGAACATGAGGGAAGGGCTCACAATTTGGCTATAGAGCCTGGTAGTCCTTACATTTTCTACAGCTGTGGTGAGGAAGGCTTTGTTCAACATgtaagccattaaacaggtgc--agtatttcaggtgttt-gtaaactgatatataaccaagtgtaatctttcttgtg-cag
upper sequence: GLYMA20G23960.1 (Glycine max), 5'ss of exon 3
lower sequence: AT4G35140.1 (Arabidopsis thaliana), 5'ss of exon 3
GTGTCTGGCCAAGCATCAAGGAAGGGCTCATAAGTTGGCTATTGAGCCTGGTAGCCCTCATATTTTTTATACCTGTGGTGAAGATGGATTAGTGCAGCGTgtgagtcattcatttctttcctactttttttgttattttatttattgtttatcctctcactaagtgttttcttttgacag----------
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TTTCTTGGGATTGCATCAAGGACGAGCTCATAAACTATGTATAGAGCCAGGAAACCCACATATATTTTACACATGTGGTGAAGATGGATTAGTACAACGTgtgagtagtaagctgcatcactgttttgatatctactttagta--tccttataatttgattaaagacattggattgttgcccattttcag
upper sequence: GLYMA20G23960.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv03s0038g02940.t01 (Vitis vinifera), 5'ss of exon 5
GTGTCTGGCCAAGCATCAAGGAAGGGCTCATAAGTTGGCTATTGAGCCTGGTAGCCCTCATATTTTTTATACCTGTGGTGAAGATGGATTAGTGCAGCGTgtgagtcat------------tcatttctttcctacttttttt--gttattttatttat-tgtttatcctctcactaagtgttttcttttgacag-----
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TTTGCTAGCCAAACATCAGGGACGAGCTCATAAGTTGGCCATTGAGCCTGGGAGCCCTTACATATTTTACACTTGTGGTGAAGATGGATTGGTTCAGCATgtgagttataatagcttcaagttattaattctgtaatttttctctgtcaaagaatctaagtaaacttggttaaattgaacttttgttcatagcagataatMapped 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|192306557|gb|FG996233.1|FG996233EST: GTAGCCCTCATATTTTTTATACCTGTGGTGAAGATGGATTAGTGCAGCGT TTTGATCTGAGAACTGGGGGCTGCAACAGAACTTTTTTACATGCCAGCCAA
genomic: GTAGCCCTCATATTTTTTATACCTGTGGTGAAGATGGATTAGTGCAGCGTgtgagtcatt ... cttttgacagTTTGATCTGAGAACTGGGG-CTGCAACAGAACTTTTT-ACATGCCAGCCAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGTCTGGCCAAGCATCAAGGAAGGGCTCATAAGTTGGCTATTGAGCCTGGTAGCCCTCATATTTTTTATACCTGTGGTGAAGATGGATTAGTGCAGCGTgtgagtcattcatttctttcctactttttttgttattttatttattgtttatcctctcactaagtgttttcttttgacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA