Sequence
atgc intronic sequence ATGC exonic sequenceTTTAGCTATCTCCGGCGACATTCGTAACAGTTGGGCTGGTGTCTCCGCTTTGCAAGCTCTCTTCATCAAAGAGCACAACGCCGTATGCGACGCCCTCAAGgtttttttttttttaataaattttttaatgtacattacgaaattaattaaaatattttttcttttgtacaaaactaattaagaacacttttatttaatatag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G01420.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G01420.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os12g26290.6 (Oryza sativa), 5'ss of exon 6
TTTAGCTATCTCCGGCGACATTCGTAACAGTTGGGCTGGTGTCTCCGCTTTGCAAGCTCTCTTCATCAAAGAGCACAACGCCGTATGCGACGCCCTCAAGgtttttttttttttaataaat-tttttaatgtacattacgaaattaattaaaatattttttcttttgtacaaaacta--attaagaacacttttatttaatatag-----------------------------------------------------------------------------------------------
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TGTGGCATTATCCGGCGACATTCGCAACAGTTGGGCTGGTGTTTCGATCTTACAAGCTCTTTTTGTTAAGGAACACAATGCAGTTTGTGATGCAATAAAGgtaagcgaatatatcatcactattttctatttgtttagttttaggaagaatataatttgctgttcttgactagcttgccactgattgtctatttgtttagttttaggaagaatataaactgttatttaccaaaacattaatttgttttctttatgctataaatatgaagaaaagattacaaatgttttttttaatctcag
upper sequence: AT3G01420.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv14s0066g01690.t01 (Vitis vinifera), 5'ss of exon 6
--TTTAGCTATCTCCGGCGACATTCGTAACAGTTGGGCTGGTGTCTCCGCTTTGCAAGCTCTCTTCATCAAAGAGCACAACGCCGTATGCGACGCCCTCAAGgtttttttttttttaataaattttttaatgtacattacgaaattaattaaaatattttttcttttgtacaaaactaattaagaaca-cttttatttaatatag
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GATTCCGCTGTCT--GGAGACGTCAGAAACGGTTGGGCTGGCCTTTCAACTCTTCAGGCTCTCTTCATCAAAGAGCACAATGCCGTCTGTGATGCCCTCAAGgtacaccggccggccctttaattag-gatacacatatatatgtatatttgtatatttagatgctcttattaatttgatgaattcaatcttccaaatgttttag
upper sequence: AT3G01420.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv14s0066g01670.t01 (Vitis vinifera), 5'ss of exon 5
TTTAGCTATCTCCGGCGACATTCGTAACAGTTGGGCTGGTGTCTCCGCTTTGCAAGCTCTCTTCATCAAAGAGCACAACGCCGTATGCGACGCCCTCAAGgttttttttttt-----ttaataaattttttaa-tgt-acattacgaaattaattaa--aatattttttcttttgtacaaaactaattaagaacacttttatttaatatag
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GATTCCGGTGAGCGGAGATGTTCGCAACAGTTGGGCTGGCGTATCAACACTGCAGGCTCTCTTCGTCAAAGAGCACAATGCAGTTTGTGATGCCCTCAAGgtgctattatataattgctaatatgccctcaaggtgtcatattat-aaatgagtaaattaaaactttgattttggttttgtgatgtttcag--------------------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|86085280|gb|DR381039.1|DR381039EST: TGCAAGCTCTCTTCATCAAAGAGCACAACGCCGTATGCGACGCCCTCAAG GATGAGGATGATGATTTGGAAGACGAAGATTTGTACCGGTACGCTAGGCTA
genomic: TGCAAGCTCTCTTCATCAAAGAGCACAACGCCGTATGCGACGCCCTCAAGgttttttttt ... tttaatatagGATGAGGATGATGATTTGGAAGACGAAGATTTGTACCGGTACGCTAGGCTA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTTAGCTATCTCCGGCGACATTCGTAACAGTTGGGCTGGTGTCTCCGCTTTGCAAGCTCTCTTCATCAAAGAGCACAACGCCGTATGCGACGCCCTCAAGgtttttttttttttaataaattttttaatgtacattacgaaattaattaaaatattttttcttttgtacaaaactaattaagaacacttttatttaatatag
- - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA