Sequence
atgc intronic sequence ATGC exonic sequenceTCGCTGCTGCTCTGGCGTATCGTAGCCCATTTGTCTTACCATTAAATAGGAAAGAGGAAGCTGATGAAGCCAAACGATATTTTGCTGGTGATTCCTGCAGgtatgacatctataggcaaattacgtttatttcacaccgtcagtcaaccaggtcactgtgttctgtttcttacggaaaagatttggcatatatgtgttgtgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G35920.1 |
intron # | 13 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G35920.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: LOC_Os10g33275.1 (Oryza sativa), 5'ss of exon 14
TCGCTGCTGCTCTGGCGTATCGTAGCCCATTTGTCTTACCATTAAATAGGAAAGAGGAAGCTGATGAAGCCAAACGATATTTTGCTGGTGATTCCTGCAGgtatgacatctataggcaaattacgtttat-ttcacaccgtcagtcaaccaggtcactgtgttctgtttcttacgg-aaaagatttggcatatatgtgttgtgcag
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TCGCTGCTGCTCTTGCATATCGTAATCCATTTGTGCTCCCAATAGATAGGAAAGAAGAAGCTGATGCTGTCAAAAGATCATTTGCTGGTGACTCCTGCAGgtaattaatataatcttttctctgttccgtattgattccttttgtcttacctgt-actaaaatatctttgtcaccatataatgcaaagaatgtgagtgtta-----
upper sequence: AT2G35920.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA02G35240.1 (Glycine max), 5'ss of exon 16
TCGCTGCTGCTCTGGCGTATCGTAGCCCATTTGTCTTACCATTAAATAGGAAAGAGGAAGCTGATGAAGCCAAACGATATTTTGCTGGTGATTCCTGCAGgtatgacatctataggcaa-attacgtttatttcacaccgtcagtcaaccaggtc--actgtgttctgtttcttacggaaaagatttggcatatatgtgttgtgcag
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TTGCTGCCTCTCTTGCTTACCGCAACCCATTTGTCTTACCCATAAACAGAAAAGAGGAAGCCGATGCAGCAAAACAATTTTTTGCTGGTGATTCTTGCAGgttagttgttgatagtcaagaaaatgttccttccctggtggtgttcattcaaattttactgcatagatcaagccaggtgctcaattataaatatattttcatttcag
upper sequence: AT2G35920.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: GLYMA10G10180.1 (Glycine max), 5'ss of exon 15
TCGCTGCTGCTCTGGCGTATCGTAGCCCATTTGTCTTACCATTAAATAGGAAAGAGGAAGCTGATGAAGCCAAACGATATTTTGCTGGTGATTCCTGCAGgtatgacatctataggcaa-attacgtttatttcacaccgtcagtcaaccaggtcactgtgttctgtttcttacggaaaagatttg-gcatatatgtgttgtgcag
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TTGCTGCTGCTCTTGCATACCGCAACCCATTTGTCTTACCCATAAACAGAAAAGAGGAAGCCGATGCAGCAAAACAATCTTTTGCAGGTGATTCTTGCAGgttagttgttgatattcaagaaaatgttccttccctggtggtgttcattcaaattttactgcattgatcaagctagtgctcaattataaatatattttcatttcag
upper sequence: AT2G35920.1 (Arabidopsis thaliana), 5'ss of exon 13
lower sequence: Vv08s0032g01230.t01 (Vitis vinifera), 5'ss of exon 13
TCGCTGCTGCTCTGGCGTATCGTAGCCCATTTGTCTTACCATTAAATAGGAAAGAGGAAGCTGATGAAGCCAAACGATATTTTGCTGGTGATTCCTGCAGgtatgacatctataggcaaattacgtttatttc-acaccgtcagtc----aaccaggtcactgtgttc--tgtttcttacggaaaag----atttggcatatatgtgttgtgcag
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TTGCAGCTGCTCTTGCACATCGTGACCCATTTGTCCTTCCAATAAATAGGAAAGAAGAAGCTAATGCTGCAAAAAGATCCTTTGCTGGCGATTCTTGCAGgt-tcagttatttaacaaagtcatgctgttctctgctttgagaattgtagaatcttttcaaaatttacattgattttgttgataaggtgaaattttccacacct-tttaatgcagMapped 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|124825525|gb|EH910391.1|EH910391EST: TTTGCT-GTGATTCCTGCAG TGATCACATTGCTCTTCTTAAGGCATATGAGGGATATCGGGATGCAAAGCG
genomic: TTTGCTGGTGATTCCTGCAGgtatgacatc ... tgttgtgcagTGATCACATTGCTCTTCTTAAGGCATATGAGGGATATCGGGATGCAAAGCG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCGCTGCTGCTCTGGCGTATCGTAGCCCATTTGTCTTACCATTAAATAGGAAAGAGGAAGCTGATGAAGCCAAACGATATTTTGCTGGTGATTCCTGCAGgtatgacatctataggcaaattacgtttatttcacaccgtcagtcaaccaggtcactgtgttctgtttcttacggaaaagatttggcatatatgtgttgtgcag
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG