Sequence
atgc intronic sequence ATGC exonic sequenceTTCTTGTTGAAACACTGGACAAATGCTTCAGCAATGTCTGCGAACTCGACATTGTGTTCAACTACAGCAAGgtaatcttattacacagaacagtttgtcctgcagtgtagttgatattattttcagaatttgctgctgcagattggttggatcttttagatagctacatgaaacaaaagcgtgtcaataatatagctttatgccttcttctttctttccttcattgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G50860.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G50860.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA16G25400.1 (Glycine max), 5'ss of exon 6
TTCTTGTTGAAACACTGGACAAATGCTTCAGCAATGTCTGCGAACTCGACATTGTGTTCAACTACAGCAAGgtaat---cttattacacagaacagtttgtcctgcagtgtagttgatattattt---tcagaatttgctgctgcagattggttggatcttttagatagctacatgaaacaaaagcgtgtcaataatatagctttatgccttcttctttctttccttcattgcag
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TGTTTGTTGAAACATTGGACAAATGCTTCAGAAATGTATGTGAGCTTGATATCGTGTTCAACTATAGTAAGgttgtatgctttgtgcccctgattatgaatcttatatt-tatttcaaattaactctattataatgtgcctctgtagcaaga---aatgaattaga-aactgtatt-----------------------------------------------------------
upper sequence: AT3G50860.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA02G06350.2 (Glycine max), 5'ss of exon 6
TTCTTGTTGAAACACTGGACAAATGCTTCAGCAATGTCTGCGAACTCGACATTGTGTTCAACTACAGCAAGgtaatcttattacacagaacagtttgtcctgcagtgtagttgatattattttcagaatttgctgctgcagattggttggatcttttagatagctacatgaaacaaaagcgtgtcaataatatagctttatgccttcttctttctttccttcattgcag
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TGCTTGTGGAAACATTGGACAAATGCTTCAGAAATGTATGTGAGCTTGATATCGTGTTCAACTATAGTAAGgttgt-------------atgctttgtgccccccgattatgaatcttatatttatttcaagttgactccattataatgtacctctgtagcaagaaatgaatttgaaactgtgt---------------------------------------------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|86085361|gb|DR381120.1|DR381120EST: AATGCTTCAGCAATGTCTGCGAACTCGACATTGTGTTCAACTACAGCAAG ATGCACGCGGTGTTAGATGAGATTGTATTTGGAGGACAAGTACTGGAAACT
genomic: AATGCTTCAGCAATGTCTGCGAACTCGACATTGTGTTCAACTACAGCAAGgtaatcttat ... ttcattgcagATGCACGCGGTGTTAGATGAGATTGTATTTGGAGGACAAGTACTGGAAACT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTCTTGTTGAAACACTGGACAAATGCTTCAGCAATGTCTGCGAACTCGACATTGTGTTCAACTACAGCAAGgtaatcttattacacagaacagtttgtcctgcagtgtagttgatattattttcagaatttgctgctgcagattggttggatcttttagatagctacatgaaacaaaagcgtgtcaataatatagctttatgccttcttctttctttccttcattgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG