Sequence
atgc intronic sequence ATGC exonic sequencegtaagctctttttatcaaatgccattgcgagtttagctcgaaaaactttataacatacgttggtagatgctccatgtacaggtgtactccatagaatgttgcatatcaatgatcttttactttgcagATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTTCTGCCATCTGATTCAGAGATTTTACTTGACTCTCCCGAACAAGAGGACATAGGTAAACATTA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G46420.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G46420.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA16G02860.2 (Glycine max), 3'ss of exon 7
gtaagctctttttatcaaatgccattgcgagtttagctcgaaaaactttataa-catacgttggtagatgctccatgtacaggtgtactccatagaatgttgcatatcaatgatcttttactttgcagATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTTCTGCCATCTGATTCAGAGATTTTACTTGACTCTCCCGAACAAGAGGACATAGGTAAACATTA
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------------------ttgaaatgactaaatgcagtcaagga---ttataatcaagattttatatatgttcaat-cattgttggtctcttcttgcttttac-tgtct-tgagtt----ctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG----------
upper sequence: AT2G46420.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA07G06230.2 (Glycine max), 3'ss of exon 7
gtaagctctttttatcaaatgccattgcgagtttagctcgaaaaactttataacatacgttggtagatgctccatgtacaggtgtactccatagaatgttgcatatcaatgatcttt-tactttgcagATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTTCTGCCATCTGATTCAGAGATTTTACTTGACTCTCCCGAACAAGAGGACATAGGTAAACATTA
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---------------------------tagaaatgactaaatgcagtcaacaataatactcaagaatttataaatgttcaatcattgttggtgtcttcttgctt-ttactgtcttgagttctttgcagATCTAGGAGCTCTGGGAAACTATCCTGGTTCACCATTTTTGCCATCTGATTCAGACATTTTGCTAGAATCTCCTGATCAACAGGATATAG----------
upper sequence: AT2G46420.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA19G44420.1 (Glycine max), 3'ss of exon 7
gtaagctctttttatcaaatgccattgcgag-tttagctcgaaaaactttataacatacgttggtagatgctccatgtacaggtgtactccatagaatgttgcatatcaatgatcttttactttgcagATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTTCTGCCATCTGATTCAGAGATTTTACTTGACTCTCCCGAACAAGAGGACATAGGTAAACATTA
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------------------------ttgagaactttggcttttgttgtaattttctttttctttttaaatctttaccctgt--gtggacgtcttcgtgctttatttatgaattatcttt--ctatgcagATCTAGGAGCTCTAGGAAACTATCCTGGTTCACCATTTATGCAGTCTGATTCAGATATTTTGCTTGAATCATCGGATCAAAAGGACATAG----------
upper sequence: AT2G46420.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv15s0046g00990.t01 (Vitis vinifera), 3'ss of exon 7
gtaagctctttttatcaaatgccattgcgagtttagctcgaaaa--act-ttataacatacgttggtagatgctccatgtacaggtgtactccatagaatgttgcatatcaatgatcttttactttgcagATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTTCTGCCATCTGATTCAGAGATTTTACTTGACTCTCCCGAACAAGAGGACATAGGTAAACATTA
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-------------------------tgagaaggtatatggtatatcactgctgctgcatggattattttgtaatccat-tatgagca-acctcatg---ttttgataatttgtggtgaaatcgtttgcagATCTAGGAGCTTTGGGAAACTACCCCGGTTCTCCCTTTCTGGGTTCTGATTCAGACATTTTGCTTGATTCTCCGGAGCAAGAGGATATAG----------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|116445045|gb|EG487637.1|EG487637EST: TTGGAACTTTAGTCTTTCTGACCTCACTGCAGATTTGTCAAATCTTGGAG ATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTTTCTGCCATCTGAT
genomic: TTGGAACTTTAGTCTCTCTGACCTCACTGCAGATTTGTCAAATCTTGGAGgtaagctctt ... tactttgcagATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTT-CTGCCATCTGAT
EST:
gi|116445046|gb|EG487638.1|EG487638EST: TTGGAACTTTAGTCTCTCTGACCTCACTGCAGATTTGTCAAATCTTGGAG ATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTTTCTGCCATCTGAT
genomic: TTGGAACTTTAGTCTCTCTGACCTCACTGCAGATTTGTCAAATCTTGGAGgtaagctctt ... tactttgcagATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTT-CTGCCATCTGAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgtacaggtgtactccatagaatgttgcatatcaatgatcttttactttgcagATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTTCTGCCATCTGATTCAGAGATTTTACTTGACTCTCCCGAACAAGAGGACATAGGTAAACATTA
tcttttacttt CT-rich tract
ttttacttt TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctctttttatcaaatgccattgcgagtttagctcgaaaaactttataacatacgttggtagatgctccatgtacaggtgtactccatagaatgttgcatatcaatgatcttttactttgcagATTTAGGGGCTTTAGGAAACTATCCCGGTTCTCCTTTTCTGCCATCTGATTCAGAGATTTTACTTGACTCTCCCGAACAAGAGGACATAGGTAAACATTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA