Sequence
atgc intronic sequence ATGC exonic sequenceAGTTGTTTCATCTGTTGACAAGAAGCTAGAAGTTAAATCTCGATTTCTTGAAATTTTTCGGGAGGATAATTTTCCGACAGAATTTCCATACAAGTCCAAGgtaagaatgatcgacgcacaccatcattgtatttgcttcatgtccacatttaatattttcaggattcctctcttgtagtaatatcgttcgtgctccacattttatttatcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G16710.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G16710.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: LOC_Os02g04490.1 (Oryza sativa), 5'ss of exon 9
AGTTGTTTCATCTGTTGACAAGAAGCTAGAAGTTAAATCTCGATTTCTTGAAATTTTTCGGGAGGATAATTTTCCGACAGAATTTCCATACAAGTCCAAGgtaagaatgatcgacgcacaccatcattgtatttgcttcatgtccacatttaatattttcaggattcctctcttgtagtaatatcgttcgtgctccacattttatttatcag
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AGTTGTTTCATCAGTGGACAAGAAGCTGGAAGTAAAACCACGTTTTTTGGAAATTTTTCAAGAAGATAACTACCCGACAGAGTTCCCATACAAGTCCAAGgtaagaa--attagtcca----------gtattc-tttcaaaagaacaccaatcatttcaagcataaatcatacgtgaaactgttttttat----caaat---gtttggcag
upper sequence: AT1G16710.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA07G00230.1 (Glycine max), 5'ss of exon 9
AGTTGTTTCATCTGTTGACAAGAAGCTAGAAGTTAAATCTCGATTTCTTGAAATTTTTCGGGAGGATAATTTTCCGACAGAATTTCCATACAAGTCCAAGgtaa--gaatgatcgacgcacaccatc--attgtatttgcttcatgtccacatttaatattttcaggattcctctcttgtagtaatatcgttcgtgctccacattttatttatcag
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AGTTGTGTCATCTGTTGACAAAAAGTTAGAAGTGAAACCGCGGTTTCTGGAGATTTTTCAGGAAGAGAATTACCCAACAGAATTTCCATATAAATCAAAGgtgatgggaaagttgattttatccatccgattgtaatcaaatcat--taatcatgaatactttt--gattcccttagctttctattccag--------------------------
upper sequence: AT1G16710.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA08G24290.1 (Glycine max), 5'ss of exon 11
AGTTGTTTCATCTGTTGACAAGAAGCTAGAAGTTAAATCTCGATTTCTTGAAATTTTTCGGGAGGATAATTTTCCGACAGAATTTCCATACAAGTCCAAGgtaagaatga--tcgacgca-caccatcattgtatttgcttcatgtccacatttaatattttcaggattcctctcttgtagtaatatcgttcgtgctccacattttatttatcag
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AGTTGTGTCATCTGTTGACAAAAAGTTAGAAGTGAAACCGCGGTTTCTGGAGATTTTTCAGGAAGAGAATTACCCAACAGAATTTCCATATAAATCAAAGgtgatgagaaagttgatttatcaatctgatcgtaatcgaatcat--taatcatgaatattatttg-atgcccttagctttctattccag--------------------------
upper sequence: AT1G16710.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA15G00250.1 (Glycine max), 5'ss of exon 9
AGTTGTTTCATCTGTTGACAAGAAGCTAGAAGTTAAATCTCGATTTCTTGAAATTTTTCGGGAGGATAATTTTCCGACAGAATTTCCATACAAGTCCAAGgtaa--gaatgatcgacgcacaccatcattgtatttgct-tcatgtccacatttaatattttcaggattcctctcttgtagtaatatcgttcgtgctccacattttatttatcag
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AGTTGTGTCATCTGTAGACAAGAAGTTAGAAGTTAAACAGAGGTTTTTGGAGATTTTTCAGGAAGAAAATTACCCAACAGAATTTCCATATAAATCGAAGgtaaagggaaggttgctttagagc-tagtcatgttggtaatcaagtcgttattatttattctggattttgatgacttttggt--ttccatttcag--------------------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|116434362|gb|EG476954.1|EG476954EST: AAATTTTTCGGGAGGATAATTTTCCGACAGAATTTCCATACAAGTCCAAG GTGGTTCTGCTGTTCCAGAAGATAGAAGGTGTAGAAGTATGCTTGTTTGGG
genomic: AAATTTTTCGGGAGGATAATTTTCCGACAGAATTTCCATACAAGTCCAAGgtaagaatga ... tatttatcagGTGGTTCTGCTGTTCCAGAAGATAGAAGGTGTAGAAGTATGCTTGTTTGGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTTGTTTCATCTGTTGACAAGAAGCTAGAAGTTAAATCTCGATTTCTTGAAATTTTTCGGGAGGATAATTTTCCGACAGAATTTCCATACAAGTCCAAGgtaagaatgatcgacgcacaccatcattgtatttgcttcatgtccacatttaatattttcaggattcctctcttgtagtaatatcgttcgtgctccacattttatttatcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT