Sequence
atgc intronic sequence ATGC exonic sequenceGGGAGAATATGGCACAGCTGATGGGAAATATTCTGCCTCCTATATTAGTGGAAAGCTGTGCGATGTGGCAGATGCATACTCAAGTGATGAAACTGTAAAGgtatctcttcagcttttaaatattattcaccgtgaaaacctttacgtgcttagctgttctggtcttttagttctgtgtatgctgtagtttcttgtaacac...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G31730.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G31730.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os01g68750.1 (Oryza sativa), 5'ss of exon 8
GGGAGAATATGGCACAGCTGATGGGAAATATTCTGCCTCCTATATTAGTGGAAAGCTGTGCGATGTGGCAGATGCATACTCAAGTGATGAAACTGTAAAGgtatctcttcagcttttaaatattattc-accgtgaaaacctttacgtgcttagctgttctggtcttttagttctgtgtatgctgtagtttcttgtaacac-
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GGGAGAATATGGAACAGCAGATGGGAAATATTCAGCTTCATATATTATTGGGAAGCTGTATGATGTGGCAGAGGCCCACCCAACTGATGACACTGTCAGGgtatgctcttgtagtttagcttttgttccactgttattacatgtg-gcccattgctactgtgcatgctctgtgttgaa-atattataatatagatccaagtt
upper sequence: AT1G31730.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G146697_T03 (Zea mays), 5'ss of exon 8
GGGAGAATATGGCACAGCTGATGGGAAATATTCTGCCTCCTATATTAGTGGAAAGCTGTGCGATGTGGCAGATGCATACTCAAGTGATGAAACTGTAAAGgtat-ctcttcagcttttaaatattattcaccgtgaaaacctttacgtgcttagctgttctggtcttttagttctgtgtatgctgtagtttcttgtaacac-
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GGGGGAATATGGAACAGCAGATGGAAAATATTCAGCTTCTTATATTATTGGGAAGTTGTGTGATGTGGCAGAGGCCCACCTCACTGATGACACTGTCAAGgtatgcattttgactttgtagtgtagctcat-gtttcattggtcatttgccttggcctccttataaccttcatgc-tatatgctgaaatatgacaataggtt
upper sequence: AT1G31730.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA16G20260.1 (Glycine max), 5'ss of exon 7
GGGAGAATATGGCACAGCTGATGGGAAATATTCTGCCTCCTATATTAGTGGAAAGCTGTGCGATGTGGCAGATGCATACTCAAGTGATGAAACTGTAAAGgtatctcttcagcttttaa-atattattcaccgtgaaaacctttacgtgcttagctgttctggtcttttagttctgtgtatgctgtagtttcttgtaacac
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GGGGGAATATGGCACAGCTGATGGAAAGTATTCTGCTTCCTATATCACTGGGAAGCTATGTGATGTTGCAGAGGCATATTCAAATGATGAAACTGTTAAGgtatttatctaattccaattattttgttttgtattagtgaaatccaacattttactgataagaagaggggaaaagttatcaaattaacttgctaccaatt-
upper sequence: AT1G31730.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA16G08320.1 (Glycine max), 5'ss of exon 7
GGGAGAATATGGCACAGCTGATGGGAAATATTCTGCCTCCTATATTAGTGGAAAGCTGTGCGATGTGGCAGATGCATACTCAAGTGATGAAACTGTAAAGgtatctcttcagcttttaaatattattcaccgtgaaaacctttacgtgcttagctgttctggtcttttagttctgtgtatgctgtagtttcttgtaacac----
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TGGGGAATATGGCACTGCTGATGGAAAATATTCTGCTTCGTATATCACTGGGAAGCTATGTGATGTTGCAGAGGCATATTCAAATGATGAAACTGTTAAGgtatttatctaa-ttccaattattttgttttgtattagtgaaatccaactt---tttactgataaggagagaggggaaaagtaatgataccctttgatattgacMapped 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|47832297|gb|CK121981.1|CK121981EST: GCGATGTGGCAGATGCATACTCAAGTGATGAAACTGTAAAG GGTTATGCTGTTTCTGCACTGATGAAGATCTACGCATTTGAAATTGCATCT
genomic: GCGATGTGGCAGATGCATACTCAAGTGATGAAACTGTAAAGgtatctcttc ... ctttatgaagGGTTATGCTGTTTCTGCACTGATGAAGATCTACGCATTTGAAATTGCATCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGAGAATATGGCACAGCTGATGGGAAATATTCTGCCTCCTATATTAGTGGAAAGCTGTGCGATGTGGCAGATGCATACTCAAGTGATGAAACTGTAAAGgtatctcttcagcttttaaatattattcaccgtgaaaacctttacgtgcttagctgttctggtcttttagttctgtgtatgctgtagtttcttgtaacac
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcttcagc