Sequence
atgc intronic sequence ATGC exonic sequenceATGAAGAGGCCGTGGCTGTACAAGAGCAAGTTAGACAAATTAAGGCCCAAGAGGAGGAGTTTGAAACCTTTGACCTCAAAATTGTGCATCGAAAAAACAGgtaagatttctccctaattttttgttttaaattacatcagtaatcgctttatttcctgtttagagagccacacatgatgttttctttttgtctctgattg...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G73450.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G73450.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os03g51020.1 (Oryza sativa), 5'ss of exon 2
ATGAAGAGGCCGTGGCTGTACAAGAGCAAGTTAGACAAATTAAGGCCCAAGAGGAGGAGTTTGAAACCTTTGACCTCAAAATTGTGCATCGAAAAAACAGgtaagatttctccc-taattttttgttttaaattacatcagtaatcgctttatttcctgtttaga----gagccacacatgatgttttc-tttttgtctctgattg--------------------------------------------------
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ATGAGGAAGCAGCAGCATTGCAAGAGCAAGTAAGGCAGATAAAGGCCCAGGAAGAAGAATTTGAAACTTTTAATCTAAAGATTGTGCATAGAAAAAACAGgtgctctttttctggtccttaattacttggcatttctttattagttcatttgtattaaaatgatacttggtatcatgcttggtgtttgcgtttgttaatttgtttatctctaacgatattttttaactccattatatcctgctgacaatataacag
upper sequence: AT1G73450.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G015073_T01 (Zea mays), 5'ss of exon 2
ATGAAGAGGCCGTGGCTGTACAAGAGCAAGTTAGACAAATTAAGGCCCAAGAGGAGGAGTTTGAAACCTTTGACCTCAAAATTGTGCATCGAAAAAACAGgtaagatttctccctaattttttgttttaaattacatcagtaatc--gctttatttcctgtttagagagccacacatga-tgttttctttttgtctctgattg-----------------------------------------------------------------------
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ATGAGGAAGCAGCAGCGTTGCAAGAGCAAGTCAGGCAGATAAAGGCGCAGGAGGAAGAGTTTGAAACGTTCAATCTTAAGATTGTGCATAGAAAAAACAGgtaatgcattt----aaatgtttgtcccatattttaatcttactaaagcataaaaaatgatgtggtgattttcagttatctattgtccttgtgtgcctgtgttcacagtgtggcacttaaacctttttataaagtattttgtgtattctaacattatctcctattaattatcag
upper sequence: AT1G73450.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA09G29970.1 (Glycine max), 5'ss of exon 2
ATGAAGAGGCCGTGGCTGTACAAGAGCAAGTTAGACAAATTAAGGCCCAAGAGGAGGAGTTTGAAACCTTTGACCTCAAAATTGTGCATCGAAAAAACAGgtaagatttctccctaattttttgttttaaattacatcagtaatcgctttatttcctgtttagagagccacacatgatgttttctttttgtctctgattg-----
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ATGAAGAGGCAGCTGCTGTGCAAGAGCAGGTAAGGCAAATAAAGGCTCAGGAGGAGGAATTTGAAACCTTCAATCTAAAGATTGTGCACAGGAAAAACAGgcatg-----tcttaaacatatcatgcttactattttcattcatttgcaaagttgttgaggaaattagtacttaagatttttttatgatatagattatagaagaa
upper sequence: AT1G73450.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA16G34510.1 (Glycine max), 5'ss of exon 2
ATGAAGAGGCCGTGGCTGTACAAGAGCAAGTTAGACAAATTAAGGCCCAAGAGGAGGAGTTTGAAACCTTTGACCTCAAAATTGTGCATCGAAAAAACAGgtaagatttctccctaattttttgttttaaattacatcagtaatcgctttatttcctgtttagagagccacacatgatgttttctttttgtctctgattg------
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ATGAAGAGGCAGCTGCTGTGCAAGAGCAGGTAATGCAAATAAAGGCTCAAGAGGAGGAATTTGAAACCTTCAATCTAAAGATTGTGCACAGGAAAAACAGgcatg-----tcttaaacatatcatgcttactattttcattcatttgcaaagtagttgaggaaattagtacttcagat-ttttttttatgatatagattatagaag
upper sequence: AT1G73450.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA08G06160.1 (Glycine max), 5'ss of exon 4
ATGAAGAGGCCGTGGCTGTACAAGAGCAAGTTAGACAAATTAAGGCCCAAGAGGAGGAGTTTGAAACCTTTGACCTCAAAATTGTGCATCGAAAAAACAGgtaagatttctccctaattttttgt---------tttaaattaca-tcagtaatcgctttatttcctgtttagagag------ccacacatgatgttttctttttgtctctgattg
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---------------CTGTGCAAGAGCAAGTAAGGCAGATAAAGGCACAGGAGGAGGAATTTGAAACCTTCAATCTAAAGATTGTGCACAGAAAAAACAGGCATGTTTTTAATGTgtatgtgtgtgtatgcttatctaagctataatcactagtcatggtatttattggttaagtatacttctccaataagcatgcttactatttacctcaattt-
upper sequence: AT1G73450.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv01s0011g01590.t01 (Vitis vinifera), 5'ss of exon 8
ATGAAGAGGCCGTGGCTGTACAAGAGCAAGTTAGACAAATTAAGGCCCAAGAGGAGGAGTTTGAAACCTTTGACCTCAAAATTGTGCATCGAAAAAACAGgtaagatttctccctaattttt---tgttttaaattacatcagtaatcgctttatttcctgtttagagagccacacatgatgttttctttttgtctctgattg-
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ATGAAGAAGCAGCTGCTGTGCAAGAGCAAGTAAGGCAGATAAAAGCTCAGGAGGAGGAATTTGAGACCTTCAATCTCAAAATTGTGCATAGGAAAAACAGgcatg-tctcccctcatctgaaaaatcttttaaactattaaataactcatcctagttc---tttgcaggctaatattccattttgaagttacagctgctatcatMapped 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|47830685|gb|CK120369.1|CK120369EST: GAGGAGGAGTTTGAAACCTTTGACCTCAAAATTGTGCATCGAAAAAACAG GACTGGTTTCGAAGAGGAAAAGAACTTTAACGTGGTTTTAAATTCGGTCAT
genomic: GAGGAGGAGTTTGAAACCTTTGACCTCAAAATTGTGCATCGAAAAAACAGgtaagatttc ... catttatcagGACTGGTTTCGAAGAGGAAAAGAACTTTAACGTGGTTTTAAATTCGGTCAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGAAGAGGCCGTGGCTGTACAAGAGCAAGTTAGACAAATTAAGGCCCAAGAGGAGGAGTTTGAAACCTTTGACCTCAAAATTGTGCATCGAAAAAACAGgtaagatttctccctaattttttgttttaaattacatcagtaatcgctttatttcctgtttagagagccacacatgatgttttctttttgtctctgattg
- - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttctccc