Sequence
atgc intronic sequence ATGC exonic sequenceTCCAAGTACTTTTAGAGCCTTCCGTTTTCAGCAACATAGATGGTCTTGTGGACCTGCAAATCTCTTTAGGAAAATGGTTATGGAGATCGTAAGAAACAAGgtaataataataacaaaaatttacactttttcttcttttggttaacttctttaatctgatcctattactgatctggcgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G22740.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G22740.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os02g09930.2 (Oryza sativa), 5'ss of exon 6
TCCAAGTACTTTTAGAGCCTTCCGTTTTCAGCAACATAGATGGTCTTGTGGACCTGCAAATCTCTTTAGGAAAATGGTTATGGAGATCGTAAGAAACAAGgt------aataataataacaaaaattt---acactttttcttcttttggttaacttcttta--atctga--tcctattactgat-ctggcgcag
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GCCAAGTACTTTCAAAGCCTTTCGGTTTCAGCAGCACAGGTGGTCATGTGGGCCGGCAAACCTGTTCAGGAAGATGCTGATGGAGATTGTGAGAAATAAGgtctccccaaacatagtgccaagaaatccagaaaaatttaagccatgcagcttcttgggttggcatctaacatgctattattgacattgttgcag
upper sequence: AT5G22740.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA17G05350.1 (Glycine max), 5'ss of exon 6
TCCAAGTACTTTTAGAGCCTTCCGTTTTCAGCAACATAGATGGTCTTGTGGACCTGCAAATCTCTTTAGGAAAATGGTTATGGAGATCGTAAGAAACAAGgtaataataataacaaaaatttacactttttcttctt-ttggttaac----------ttctttaatctgatcctattactgatct--ggcgcag------
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TCCAAGTACTCTTAGAGCCTTCCGCTTCCAGCAGCATCGATGGTCTTGTGGTCCTGCTAATCTATTCCGCAAAATGGTGATGGAGATAGTAAGGAACAAGgttagccttttcaatgcatgatatactattgcatattattggaggaaaaaatggtgaccgttaagggagaaattatgataaatttttggactatgacatt
upper sequence: AT5G22740.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA12G08990.1 (Glycine max), 5'ss of exon 6
TCCAAGTACTTTTAGAGCCTTCCGTTTTCAGCAACATAGATGGTCTTGTGGACCTGCAAATCTCTTTAGGAAAATGGTTATGGAGATCGTAAGAAACAAGgtaa-taataataacaaaaatttacactttttctt------cttttggttaacttctttaatctgatcctattactgatctggcgcag----------------------
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TCCTAGTACTTTGAGAGCCTTCAGATTCCAGCAGCACAGATGGTCTTGTGGTCCTGCTAATTTGTTCCGCAAAATGGTGATGGAGATTGTGAGGAACAAGgtaagtactcatttccgttaagtactatatatattgaagggtaaagggacaatgatacttaagtaattccatgtctgttctgatattttcttttgtttacatttctgcag
upper sequence: AT5G22740.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv06s0061g01230.t01 (Vitis vinifera), 5'ss of exon 6
TCCAAGTACTTTTAGAGCCTTCCGTTTTCAGCAACATAGATGGTCTTGTGGACCTGCAAATCTCTTTAGGAAAATGGTTATGGAGATCGTAAGAAACAAGgtaataataataacaaaaatttacactttttcttcttttggt----taacttctttaatctgatcctattactgatc-----tggcgcag
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GCCTAGTACTTTCAAGGCCTTCCGCTTTCAGCAACACAGGTGGTCCTGTGGTCCAGCCAATTTGTTCAGAAAAATGGTGATGGAGATTGTAAGAAACAAGgttagtttagtt-tatatctttgtgatagaaatgtaactgagaatgtaattaagataatgggactaagttgttaatcgataatcttgcagMapped 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|86052420|gb|DR348177.1|DR348177EST: GACCTGCAAATCTCTTTAGGAAAATGGTTATGGAGATCGTAAGAAACAAG AAAGTGAGATTCTGGAAGAAAGTGTACGTGATATACAGCTTCTTCTTTGTG
genomic: GACCTGCAAATCTCTTTAGGAAAATGGTTATGGAGATCGTAAGAAACAAGgtaataataa ... tctggcgcagAAAGTGAGATTCTGGAAGAAAGTGTACGTGATATACAGCTTCTTCTTTGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCCAAGTACTTTTAGAGCCTTCCGTTTTCAGCAACATAGATGGTCTTGTGGACCTGCAAATCTCTTTAGGAAAATGGTTATGGAGATCGTAAGAAACAAGgtaataataataacaaaaatttacactttttcttcttttggttaacttctttaatctgatcctattactgatctggcgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA