Sequence
atgc intronic sequence ATGC exonic sequenceAAGAGATCTTTGATGCTCTCAAGAATCAGACTGTGGATTTGGTTTTGACTGCTCATCCTACTCAGTCTGTGAGAAGATCATTGCTTCAGAAACATGGGAGgttagtctttgaggcttcaccgggcttgctttggatcgatgttttgatgttaaagttatctactttgtgcggtttttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G53310.2 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G53310.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os09g14670.1 (Oryza sativa), 5'ss of exon 2
AAGAGATCTTTGATGCTCTCAAGAATCAGACTGTGGATTTGGTTTTGACTGCTCATCCTACTCAGTCTGTGAGAAGATCATTGCTTCAGAAACATGGGAGgttagtctttgaggcttcaccgggcttgctttggatcgatgttttgatgttaaagtt---atctactttgtgcggtt----tttcag
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CTGAGGTCTTTGATGCCCTCAAGAGTCAGACTGTTGACCTTGTTTTGACTGCACATCCAACACAGTCTGTGAGGAGGTCACTGCTCCAGAAACACTCCAGgttagtcggcgaaacagcgc--gatttgctcacaccacatgatgtagtttctagtctctaatctcgattgtaacattcttatttcag
upper sequence: AT1G53310.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 5'ss of exon 2
AAGAGATCTTTGATGCTCTCAAGAATCAGACTGTGGATTTGGTTTTGACTGCTCATCCTACTCAGTCTGTGAGAAGATCATTGCTTCAGAAACATGGGAGgttagtctttgaggcttcaccgggcttgctttggatcgatgttttgatgttaa--agttatctactttgtgcggtttttcag
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CAGAGGTCTTTGATGCCCTTAAGAGTCAGACTGTTGACCTGGTTTTGACTGCACATCCAACACAGTCAGTGAGGAGGTCACTGCTTCAAAAACACTCAAGgtgagttacagaaacaatactatgatatcaaacatcctatggtttcttatcatctaattgtgaaatttcaaatataatttag
upper sequence: AT1G53310.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G473001_T02 (Zea mays), 5'ss of exon 2
AAGAGATCTTTGATGCTCTCAAGAATCAGACTGTGGATTTGGTTTTGACTGCTCATCCTACTCAGTCTGTGAGAAGATCATTGCTTCAGAAACATGGGAGgttagtctttgaggc--ttcaccgggcttgctttggat--cgatgttttgatgttaaagttatctactttgtgcggtttttcag
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CTGAGGTATTTGATGCCCTCAAGAGCCAGACTGTTGATCTGGTTTTGACTGCACATCCAACACAGTCTGTGAGGAGGTCACTGCTCCAGAAACACTCGAGgttagtttgccaaccagtgcattgtagttgacatgcacaacttcgttcagcctttaatcttgatcccaatattc---ttatcag
upper sequence: AT1G53310.3 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G110714_T01 (Zea mays), 5'ss of exon 2
AAGAGATCTTTGATGCTCTCAAGAATCAGACTGTGGATTTGGTTTTGACTGCTCATCCTACTCAGTCTGTGAGAAGATCATTGCTTCAGAAACATGGGAGgttagtctttgaggcttc--accgggcttgctttggatcgatgttttgatgttaaagttatctactt--tgtgcggtttttcag----------------
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TGGAGGTATTTGATGCTCTCAAGAATCAAACTGTTGACCTCGTCCTGACTGCACATCCAACTCAGTCAGTCCGGAGATCATTGCTTCAAAAGCATGGCAGgttagtctcgaagctttctgaattgttagatcccaggatgagatttacttgatgacattgaatatttgctatgcagaaatcttggttctatttgttctttMapped 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|125234450|gb|EL248535.1|EL248535EST: GCTCATCCTACTCAGTCTGTGAGAAGATCATTGCTTCAGAAACATGGGAG GATAAGAGACTGTCTGGCTCAACTATA
genomic: GCTCATCCTACTCAGTCTGTGAGAAGATCATTGCTTCAGAAACATGGGAGgttagtcttt ... ggtttttcagGATAAGAGACTGTCTGGCTCAACTATA
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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGAGATCTTTGATGCTCTCAAGAATCAGACTGTGGATTTGGTTTTGACTGCTCATCCTACTCAGTCTGTGAGAAGATCATTGCTTCAGAAACATGGGAGgttagtctttgaggcttcaccgggcttgctttggatcgatgttttgatgttaaagttatctactttgtgcggtttttcag
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