Sequence
atgc intronic sequence ATGC exonic sequenceTAATTACGTTGATCATCATGTTAGTACAAAAGAGCAGATCACCCTTCAGGATACCATGGATGGCGTTGTATACTCAACGTCACAATTTGGATTAGATGgtcagtggttgtttcatatttgcttgtctttagtttgtagatagctatgccgtagataagcaaagtcattttaaaacttttgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G16270.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G16270.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G421829_T01 (Zea mays), 5'ss of exon 4
TAATTACGTTGATCATCATGTTAGTACAAAAGAGCAGATCACCCTTCAGGATACCATGGATGGCGTTGTATACTCAACGTCACAATTTGGATTAGATGgtcagtg----gttgtttcatat-ttgcttgtctttagtttgtagatagctatgccgtagataagcaaagtcattttaaaacttttgcag
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---CGATACTGATCATCATGTGAGCACAAAAGAGCAGATCACTTTGCAAGACAACCCAGAGAAAACAGGATATTCAACATCCCAGTTTGGCCTAGATGgttggtcctgtgtctgtccacatattgtctgacttcatttctttaataac-attctaacaatg-gtaaagta---ttaaa---tgtgcag
upper sequence: AT5G16270.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv00s0220g00080.t01 (Vitis vinifera), 5'ss of exon 3
TAATTACGTTGATCATCATGTTAGTACAAAAGAGCAGATCACCCTTCAGGATACCATGGATGGCGTTGTATACTCAACGTCACAATTTGGATTAGATGgtcagtggttgtttcatatttgcttgtctttagtttgtagatagctatgccgtagataagcaaagtcattttaaaacttttgcag----------------------------------------
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TAACTATGTTGATCATCACGTTAGCACAAGGGAGCAGATTACACTTCAAGACACCATGGAGGGTGTGGTCTACTCTACATCACAGTTTGGACTGGATGgttagtttttggt-cttggatgcct-tttttgttttggatgatatgacaagatgggaatgattaattatattgatggttctgcacctggtaaatctaattcctatcattttatatttgatttcagMapped 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|124742499|gb|EH833661.1|EH833661EST: GGATACCATGGATGGCGTTGTATACTCAACGTCACAATTTGGATTAGATG AGCGATTTGGTGA
genomic: GGATACCATGGATGGCGTTGTATACTCAACGTCACAATTTGGATTAGATGgtcagtggtt ... acttttgcagAGCGATTTGGTGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TAATTACGTTGATCATCATGTTAGTACAAAAGAGCAGATCACCCTTCAGGATACCATGGATGGCGTTGTATACTCAACGTCACAATTTGGATTAGATGgtcagtggttgtttcatatttgcttgtctttagtttgtagatagctatgccgtagataagcaaagtcattttaaaacttttgcag
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