Sequence
atgc intronic sequence ATGC exonic sequenceGAGCTACTCCTAAAGGGGTACTGAAGATTATGAAAGTTGAAGGCTTGACTATATATCATGTTAAAAGCCATTTACAGgttcttactattctttagttccctgctaatgcatataattgtcttctaatattagattgtgtttttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G28610.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G28610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os03g21240.1 (Oryza sativa), 5'ss of exon 4
GAGCTACTCCTAAAGGGGTACTGAAGATTATGAAAGTTGAAGGCTTGACTATATATCATGTTAAAAGCCATTTACAGgttcttactattctttagttccctgcta-atgcatataattgtcttctaatattagattgtgtttttcag------------------
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AAGCTACTCCAAAAGGTGTGCTCAAGCTTATGAAAGTTGATGGTTTGACAATCTATCATGTTAAGAGTCATCTGCAGgttctttttttaatctttctaaatgtcatatttgctgaaaggagacttcagttttgactttctttatctgcacttatttttactgcag
upper sequence: AT4G28610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G006477_T01 (Zea mays), 5'ss of exon 4
GAGCTACTCCTAAAGGGGTACTGAAGATTATGAAAGTTGAAGGCTTGACTATATATCATGTTAAAAGCCATTTACAGgttc-----ttactattctt--tagt-tccctgct---aatgcatataattgtcttctaatattagattg--tgtttttcag
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AAGCTACTCCTAAGGGTGTGCTAAAGCTTATGAAAGTTGATGGTTTGACTATATATCATGTCAAAAGCCACCTGCAGgtttgctgtttagctttctaagtagtattcttgcccaaaggaggccttttcattttcttatttgaactcgtttgtgttgcag
upper sequence: AT4G28610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA10G04540.1 (Glycine max), 5'ss of exon 5
GAGCTACTCCTAAAGGGGTACTGAAGATTATGAAAGTTGAAGGCTTGACTATATATCATGTTAAAAGCCATTTACAGgttcttactattc---tttagttccct--gctaatgca-tataattgtcttctaat--attagattgtgtttttcag----
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AAGCTACTCCAAAGGGTGTGCTGAAGCTCATGAAAGTTGAAGGATTAACTATATATCATGTTAAAAGCCATTTGCAGgtatgtgcactttgcttttaactcctttggtttgttcagtagcatgcatttttactgaaacagatttggcttgaaatgaag
upper sequence: AT4G28610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA13G18800.1 (Glycine max), 5'ss of exon 2
GAGCTACTCCTAAAGGGGTACTGAAGATTATGAAAGTTGAAGGCTTGACTATATATCATGTTAAAAGCCATTTACAGgttcttactattc---tttagttccct--gctaatgca-tataattgtcttctaat--attagattgtgtttttcag----
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AAGCTACTCCAAAGGGCGTGCTGAAGCTCATGAAAGTTGAAGGATTAACTATATATCATGTTAAAAGCCATTTGCAGgtatgtgcactttgcttttaactcctttggtttgttcagtagcatgcatttttactgaaacagatttggcttgaaatgaag
upper sequence: AT4G28610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA03G32350.1 (Glycine max), 5'ss of exon 5
GAGCTACTCCTAAAGGGGTACTGAAGATTATGAAAGTTGAAGGCTTGACTATATATCATGTTAAAAGCCATTTACAGgttcttactattctttagttccctgctaatgcatataattgtcttctaatattagattgtgtttttcag----------
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GAGCTACCCCTAAAGGTGTGCTGAAGCTCATGAAAGTTGAAGGATTAACTATATACCATGTTAAAAGCCACCTACAGgtataaacaatttgcgttgtcttcttaggtttgtttccttgcgtgcttttgatgaaatatgctgctccatgaaatgcag
upper sequence: AT4G28610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA19G35080.1 (Glycine max), 5'ss of exon 5
GAGCTACTCCTAAAGGGGTACTGAAGATTATGAAAGTTGAAGGCTTGACTATATATCATGTTAAAAGCCATTTACAGgttcttactattctttagttccctgctaatgcatataattgtcttctaatattagattgtgtttttcag----------
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GAGCTACCCCTAAAGGTGTGCTGAAGCTCATGAAAGTTGATGGATTAACTATATACCATGTTAAAAGCCACCTACAGgtataaacaattcgttttgtcttcataagtttgtttcctttcgtgcttttgttgaaaaatattgctccatgaaatgcag
upper sequence: AT4G28610.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: Vv07s0005g04120.t01 (Vitis vinifera), 5'ss of exon 4
GAGCTACTCCTAAAGGGGTACTGAAGATTATGAAAGTTGAAGGCTTGACTATATATCATGTTAAAAGCCATTTACAGgttcttactattctttagttcc--ctgctaatgcat-------ataattgtcttctaatattagattgtgttttt-cag------------
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GAGCTACTCCTAAGGGTGTACTGAAGCTCATGAAAGTGGAAGGCTTAACCATCTATCATGTAAAAAGCCACTTGCAGgtatatatacttttttactttcatctagaaatgagtccctatcatgatggactttttaaggtttcttgtgatcttgctgaattgaatgcagMapped 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|164079185|gb|ES178022.1|ES178022EST: TTATGAAAGTTGAAGGCTTGACTATATATCATGTTAAAAGCCATTTACAG AAATATAGGACAGCTAGATATCGGCCAGAACCATCAGAAAC
genomic: TTATGAAAGTTGAAGGCTTGACTATATATCATGTTAAAAGCCATTTACAGgttcttacta ... tgtttttcagAAATATAGGACAGCTAGATATCGGCCAGAACCATCAGAAAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGCTACTCCTAAAGGGGTACTGAAGATTATGAAAGTTGAAGGCTTGACTATATATCATGTTAAAAGCCATTTACAGgttcttactattctttagttccctgctaatgcatataattgtcttctaatattagattgtgtttttcag
- - - - - - - - - - - - - - - - - - TTGAAG