Sequence
atgc intronic sequence ATGC exonic sequencegtataacgtggatccaactgctagtctctaatcatgtttgcaaagtgataagatgatttattttcttgaaatttgtatacatagGGGAACATTTATTGAATTCCGAAATGGAATGCTCAATGTATCACCCATTGGTCGCAACTGCAGCCAAGAAGAAAGAGATGAATTTGAGAGATATGATAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G45790.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G45790.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G165535_T05 (Zea mays), 3'ss of exon 7
gtataacgtggatccaa-ctgctagtctctaatcatgtttgcaaagtgataagatgatttattttcttgaaatt---tgtatacatagGGGAACATTTATTGAATTCCGAAATGGAATGCTCAATGTATCACCCATTGGTCGCAACTGCAGCCAAGAAGAAAGAGATGAATTTGAGAGATATGATAAG
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gtcagtcaattatcctgtccaacagttatgatttgcattagcttgttagtta--ctattgaccttcataatattggctgattgctcagGGGTACATTCATAGAGTTCCGAAGTGGAATGATTAATGTATCTCCTATAGGAAGAAACTGTAGCCAAGAAGAACGGGATGAATTTGAGAAGTACGATAAG
upper sequence: AT2G45790.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA09G39800.1 (Glycine max), 3'ss of exon 7
-------gtataacgtggatccaactgctagtctctaatcatgtttgcaaagtg-ataagatgatttattttc--ttgaaat--ttgtatacatagGGGAACATTTATTGAATTCCGAAATGGAATGCTCAATGTATCACCCATTGGTCGCAACTGCAGCCAAGAAGAAAGAGATGAATTTGAGAGATATGATAAG
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gttagtgggattcagaggttaatattttttttttctagatttgttatgatgttatatgaaactgttggttactaattgatataacaatatttttagGGGAACATTTATGGAGTTCCGTAGTGGGATGCTGAATGTGTCACCTATTGGCCGAAACTGTAGCCAAGAAGAAAGAGATGAGTTTGAGAAATATGACAAG
upper sequence: AT2G45790.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA18G46390.1 (Glycine max), 3'ss of exon 7
-----------------gtataacgtggatccaactgctagtctctaatcatgtt-tgcaaagtgataagatgatttattttcttgaaatttgtatacatagGGGAACATTTATTGAATTCCGAAATGGAATGCTCAATGTATCACCCATTGGTCGCAACTGCAGCCAAGAAGAAAGAGATGAATTTGAGAGATATGATAAG
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ggttagtgggattcagagattaatatatatatatttttagatttgttataatgttatatgaaactgttggtt-actaattgatataaaat----atttttaGGGGAACATTTATAGAGTTCCGTAGTGGGATGCTGAATGTGTCACCTATTGGCCGAAATTGTAGCCAAGAAGAAAGAGATGAGTTTGAGAAATATGACAA-
upper sequence: AT2G45790.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv15s0046g03520.t01 (Vitis vinifera), 3'ss of exon 6
----gtataacgtggatccaactgctagtctctaatcatgtttgcaaagtgataagatgatttattttcttgaaatttgtatacatagGGGAACATTTATTGAATTCCGAAATGGAATGCTCAATGTATCACCCATTGGTCGCAACTGCAGCCAAGAAGAAAGAGATGAATTTGAGAGATATGATAAG
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gttagcaaagcagaaacctgaatagcagttattaatt-tacatttagattgatacg-----ttcctctctt--aatttct-tcttcagGGGAACCTTTATAGAGTTCCGAAGTGGGATGCTCAATGTATCACCAATTGGGCGAAACTGCAGCCAGGAAGAGCGTGATGAGTTTGAAAAGTATGACAAGMapped 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|124731588|gb|EH822990.1|EH822990EST: ATAAATTTCACGCTGCACTACATTGCAGACCTGGATATTCCAATTAAGAG GGGAACATTTATTGAATTCCGAAATGGAATG
genomic: ATAAATTTCACGCTGCACTACATTGCAGACCTGGATATTCCAATTAAGAGgtataacgtg ... gtatacatagGGGAACATTTATTGAATTCCGAAATGGAATG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatcatgtttgcaaagtgataagatgatttattttcttgaaatttgtatacatagGGGAACATTTATTGAATTCCGAAATGGAATGCTCAATGTATCACCCATTGGTCGCAACTGCAGCCAAGAAGAAAGAGATGAATTTGAGAGATATGATAAG
ctctaat putative branch site (score: 3)
atttattttcttgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtataacgtggatccaactgctagtctctaatcatgtttgcaaagtgataagatgatttattttcttgaaatttgtatacatagGGGAACATTTATTGAATTCCGAAATGGAATGCTCAATGTATCACCCATTGGTCGCAACTGCAGCCAAGAAGAAAGAGATGAATTTGAGAGATATGATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG