Sequence
atgc intronic sequence ATGC exonic sequenceACAACAGATGATAATACCACCACCGGGGATGAGACACAAGAAAATACAGTGGTTTTTACAGAGATGGGAGACTTTGTCTGGGGTCTCCAGCGCGAGAACGgtaaagtttaaatcatcttctgacacagttacactgttatttatgttttgctctattatattgatctgctatagcacttcctacgttatttggaacattt...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G16780.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G16780.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA07G34600.1 (Glycine max), 5'ss of exon 9
ACAACAGATGATAATACCACCACCGGGGATGAGACACAAGAAAATACAGTGGTTTTTACAGAGATGGGAGACTTTGTCTGGGGTCTCCAGCGCGAGAACGgtaaagtttaaatcatcttctgacacagttacactgttatttatgtttt-gctctattatattgatctgctatagcacttcctacgttatttggaacattt--
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GAGACTGATGATCAAAACCCTACAGCTGGAGAGTCACGAGAAAACAAGGTGGTCTTCACAGAGATGGAAGAATTTGTCTGGGGTCTCCACATTGATGAAGgtaatttttatat-atgtggttgtctaa--ataatgaatttcatactagagtattataagtatgactgtccgtattaaatgtaaaagtggatcagttttcttt
upper sequence: AT5G16780.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA08G24660.1 (Glycine max), 5'ss of exon 9
ACAACAGATGATAATACCACCACCGGGGATGAGACACAAGAAAATACAGTGGTTTTTACAGAGATGGGAGACTTTGTCTGGGGTCTCCAGCGCGAGAACGgtaaagtttaaatcatcttctgacacagttac-actgttatttatgtttt----gctctattatattgatctgctatagcacttcctacgttatttggaacattt
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GAGACTGATGATCAAAACCCTACAGCTGGAGAGTCACGAGAAAACAAGGTGGTCTTCACAGAGATGGAAGAATTTGTCTGGGGTCTCCACATTGATGAAGgtaatttttatttatgtggttgtctaaataatgaatttcactagagtattataagtatgactgtcatgattaaatttaaaagggatcagttttcttttta-----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|163969507|gb|ES135117.1|ES135117EST: GGTTTTTACAGAGATGGGAGACTTTGTCTGGGGTCTCCAGCGCGAGAACG ATGTGCGGAAGCCTGAAAGTG
genomic: GGTTTTTACAGAGATGGGAGACTTTGTCTGGGGTCTCCAGCGCGAGAACGgtaaagttta ... ggtctttcagATGTGCGGAAGCCTGAAAGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ACAACAGATGATAATACCACCACCGGGGATGAGACACAAGAAAATACAGTGGTTTTTACAGAGATGGGAGACTTTGTCTGGGGTCTCCAGCGCGAGAACGgtaaagtttaaatcatcttctgacacagttacactgttatttatgttttgctctattatattgatctgctatagcacttcctacgttatttggaacattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacttcct