Sequence
atgc intronic sequence ATGC exonic sequenceTTGTTAGACCTATTCCTCATGGAGCTAAGCTACATGCACTAATTGATGCCTGCCATAGTGGCACTGTTCTAGATTTGCCATTTCTTTGCAGAATGAACAGgttaccttctaaagaaagtctgttatagtttctgcatggtttaacttcctgaattttggctctgttgactttagcaatgtgatggccaatgaaaaattct...
Basic information
species | Glycine max |
transcript | GLYMA08G45470.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G45470.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G035928_T01 (Zea mays), 5'ss of exon 2
TTGTTAGACCTATTCCTCATGGAGCTAAGCTACATGCACTAATTGATGCCTGCCATAGTGGCACTGTTCTAGATTTGCCATTTCTTTGCAGAATGAACAGgttacct-tctaaagaaagtctgttatagtttctgcatggtttaacttcctgaattttggctctgttgactttagcaatgtgatggccaatgaaaaattct---
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TAGTTCGACCACTTCCTCATGGAGTTAAACTTCATGCACTCATTGATGCTTGTCATAGTGGGACTGCACTTGATTTGCCTTATCTCTGCAGAATGAACAGgtaatttatattatgcatggtcatttga---tttgtctagtagggcctctgaggcttcccctcccctgtgtgctggagag-gaggcttgagggtttggtcttgg
upper sequence: GLYMA08G45470.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G155422_T01 (Zea mays), 5'ss of exon 2
TTGTTAGACCTATTCCTCATGGAGCTAAGCTACATGCACTAATTGATGCCTGCCATAGTGGCACTGTTCTAGATTTGCCATTTCTTTGCAGAATGAACAGgttaccttcta--aagaaagtctgttatagtttctgcatggtttaacttcctgaattttggctctgttgactttagcaatgtgatggccaatgaaaaattct---
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TAGTTCGACCACTTCCTCGTGGAGTTAAACTTCATGCATTCATTGATGCTTGTCATAGTGGAACTGCACTTGATTTGCCTTACCTCTGCAGAATGAACAGgtaactttatattatgcatggccatttgatcttttttatgttct--cccgcttacccttggca-tatgaagagctgtt-tctga-acctaatgggaactttatta
upper sequence: GLYMA08G45470.1 (Glycine max), 5'ss of exon 2
lower sequence: AT1G02170.1 (Arabidopsis thaliana), 5'ss of exon 2
TTGTTAGACCTATTCCTCATGGAGCTAAGCTACATGCACTAATTGATGCCTGCCATAGTGGCACTGTTCTAGATTTGCCATTTCTTTGCAGAATGAACAGgttacc---ttctaaagaaagtctgttatagtttctgcatggtttaacttcctgaattttggctctgttgactttagcaatgtgatggccaatgaaaaattct
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TTGTACGCCCTCTTCCACATGGTGTCAAGCTCCATTCAATTATCGATGCTTGCCATAGTGGTACCGTTCTGGATTTACCCTTCCTATGCAGAATGAACAGgttattagtccctcaaccgcttctaaaagggatgttgcttacctct-ctcgttatatttaacatacatccatttttttttt-taattgaaacag---------
upper sequence: GLYMA08G45470.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv15s0021g00990.t01 (Vitis vinifera), 5'ss of exon 4
TTGTTAGACCTATTCCTCATGGAGCTAAGCTACATGCACTAATTGATGCCTGCCATAGTGGCACTGTTCTAGATTTGCCATTTCTTTGCAGAATGAACAGgttaccttctaaagaaagtctgttatagtttctgcatggtttaacttcctgaattttggctctgttgactttagcaatgtgatggccaatgaaaaattct------
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TTGTCAGACCTCTTCCTCATGGGGTTAAGCTTCATGCAATAATAGATGCCTGCCATAGTGGCACCATTTTGGATTTACCATTCCTTTGCAGAATGAGCAGgttagtttc--atgtacccttgttttaaaatcta-ata--tttgttttattattacttggtgagtaaagaattgta-tatggatgcacctagaacctgcatgatat
upper sequence: GLYMA08G45470.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv16s0013g00220.t01 (Vitis vinifera), 5'ss of exon 2
TTGTTAGACCTATTCCTCATGGAGCTAAGCTACATGCACTAATTGATGCCTGCCATAGTGGCACTGTTCTAGATTTGCCATTTCTTTGCAGAATGAACAGgttaccttctaaagaaagtctgt-tatagtttctgcatggtttaacttcctgaattttggctctgttgactttagcaatgtgatggccaatgaaaaattct---------------------------------------------------------------------------------------------------
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TTGTTAGGCCTCTTCCTCATGGAGTTAAGCTTCATGCAATCATTGATGCATGCCATAGTGGCACTGTGTTAGATTTACCATTCCTCTGTAGAATGAACAGgtcagttgttttggtatttccaaacaacacttctttgtgaat--accatgtga----taagtggagagagtataa-aaagaaatgaaaaaccataaattctgtctatatatgctaactttttaataggattcaattccaattttcccttgtccatttttttagtccaccctgcttatagatgtttcctttgtggccatag
upper sequence: GLYMA08G45470.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv16s0013g00210.t01 (Vitis vinifera), 5'ss of exon 2
TTGTTAGACCTATTCCTCATGGAGCTAAGCTACATGCACTAATTGATGCCTGCCATAGTGGCACTGTTCTAGATTTGCCATTTCTTTGCAGAATGAACAGgttaccttctaaagaaagtctgttatagtttctgcatggtttaacttcctgaattttggctctgttgactttagcaatgtgatggccaatgaaaaattct----------
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TTGTTAGGCCTCTTCCTCCTGGAGTCAAGCTTCATGCAATCGTTGATGCATGCCATAGTGGTACTGTGTTAGATCTACCATTCCTTTGTAGAATGAACAGgttagtccattgg------ttttcgtatttttcaaactatata----ttcgtatcttgtttggaataacttcctattttttatttttaaaggagaatatcgatattatgaMapped 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|21887666|gb|BQ740879.1|BQ740879EST: TGCCATAGTGGCACTGTTCTAGATTTGCCATTTCTTTGCAGAATGAACAG GAGTGGGCAATATGTATGGGAGGACCATCGCCCTAGATCCGGTGTATGGAA
genomic: TGCCATAGTGGCACTGTTCTAGATTTGCCATTTCTTTGCAGAATGAACAGgttaccttct ... tttgtaacagGAGTGGGCAATATGTATGGGAGGACCATCGCCCTAGATCCGGTGTATGGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGTTAGACCTATTCCTCATGGAGCTAAGCTACATGCACTAATTGATGCCTGCCATAGTGGCACTGTTCTAGATTTGCCATTTCTTTGCAGAATGAACAGgttaccttctaaagaaagtctgttatagtttctgcatggtttaacttcctgaattttggctctgttgactttagcaatgtgatggccaatgaaaaattct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaagaaa