Sequence
atgc intronic sequence ATGC exonic sequenceATGGACACAACAAGTGCAGGAGATGCTTAACACAAAAAAGTTCGGGGACATTGCTTTCAGAGACAAGGATTTCAAGAACTCAATTGAATACTACTCCAAGgtgagaggaaatagcaacaaatccataattctcggtgttcgaaaagaatttctaacctctgtatctatggtttccag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G46570.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G46570.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os10g42110.1 (Oryza sativa), 5'ss of exon 9
ATGGACACAACAAGTGCAGGAGATGCTTAACACAAAAAAGTTCGGGGACATTGCTTTCAGAGACAAGGATTTCAAGAACTCAATTGAATACTACTCCAAGgtgagaggaaatagc---aacaaatccataattctcggtgttcgaaaag--aatttctaacctctgtatctatggtttccag------------------
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ATGGACTCAGCAAGTGCAAGAGATGCTGAATACCAAGAAGTTTGGTGACATTGCATTTAGAGACAAGGATTTCAAGACTGCAATTGACTACTACTCCAAGgtatcattgttttctcttacctaggctatgctaccgtacctttgcaatgttgacattttgcttcacgattgtttgtttgacacaagttgttttggagctt
upper sequence: AT5G46570.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G054634_T01 (Zea mays), 5'ss of exon 9
ATGGACACAACAAGTGCAGGAGATGCTTAACACAAAAAAGTTCGGGGACATTGCTTTCAGAGACAAGGATTTCAAGAACTCAATTGAATACTACTCCAAGgtgagagga-----aatagcaacaaatccataattctcggtgt-------tcgaaaagaatt-tctaacctctgtatcta--tggtttccag--------
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ATGGACCCAGCAAGTGCAAGAGATGCTGAACACAAAGAAGTTTGGTGACATTGCATTTAGAGACAAGGATTTTAAGACTGCAATTGACTACTACTCCAAGgtatcaacatccctgttctccattcatgcgtaattatggtaggaaacttatcacagagagtcatccgatgtaactgtcaaactggtcacaagtcaaagcg
upper sequence: AT5G46570.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G169080_T01 (Zea mays), 5'ss of exon 9
ATGGACACAACAAGTGCAGGAGATGCTTAACACAAAAAAGTTCGGGGACATTGCTTTCAGAGACAAGGATTTCAAGAACTCAATTGAATACTACTCCAAGgtgagaggaaa-----tagcaacaaatccataattctcggtgttcgaaaagaatttctaac--ctctgtatctatggtttccag-----------------
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ATGGACCCAGCAAGTGCAAGAGATGCTGAACACAAAGAAGTTTGGTGACATTGCATTTAGAGACAAGGATTTTAAGACTGCAATTGACTACTATTCCAAGgtatcagcatacctgttctctattttcgcgtaattat-ggtaggagactaggggtgctaacggatcacgatccaaatatttcacaatttcttagggcctaa
upper sequence: AT5G46570.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA05G06140.1 (Glycine max), 5'ss of exon 9
ATGGACACAACAAGTGCAGGAGATGCTTAACACAAAAAAGTTCGGGGACATTGCTTTCAGAGACAAGGATTTCAAGAACTCAATTGAATACTACTCCAAGgtgag-----------aggaaatagcaacaaatccataattctcggtgttcgaaaagaatttctaacctctgtat----ctatggt---ttccag---------------------------------------------
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ATGGACACAACAAGTGCAAGATATCTTGAACACAAAAAAGTTTGGGGATATTGCATTCAGAGACAAGGATTTCAAAAATGCAATTGAGTATTACTCTAAGgtagattctctgtttcacctttttttaactggttttggcttattggttgcctcaaaatgttcataatctcaatatgttcttaaggtatattcctattctgaagtcatagtctgagccctttatttctttgcattaagcag
upper sequence: AT5G46570.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA17G16420.1 (Glycine max), 5'ss of exon 9
ATGGACACAACAAGTGCAGGAGATGCTTAACACAAAAAAGTTCGGGGACATTGCTTTCAGAGACAAGGATTTCAAGAACTCAATTGAATACTACTCCAAGgtgagaggaaatagcaacaaatccataattc--tcggtgttcgaaaa--gaatttct-aacctctgtatc----tatggtttccag---------------------------------------------------------
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ATGGACACAACAAGTACAAGATATCTTGAACACAAAAAAGTTTGGGGATATTGCATTCAGAGACAAGGATTTCAAAAATGCAATCGAGTATTATTCTAAGgtagattcactgtttcacttttcttttttttaaccggttttggcttattgattgtctcaatataaaaatctcaatatgttcttaagatatattcctattctgaagtcatagtctgactgccctttatttctttgcattaacag
upper sequence: AT5G46570.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv02s0012g01140.t01 (Vitis vinifera), 5'ss of exon 9
ATGGACACAACAAGTGCAGGAGATGCTTAACACAAAAAAGTTCGGGGACATTGCTTTCAGAGACAAGGATTTCAAGAACTCAATTGAATACTACTCCAAGgtgagaggaaatagcaacaaatccataattctcg-gtgttcgaaaa-gaatttctaacctctgtatctat--ggtttccag---------------------
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ATGGACACAACAAGTGCAAGAGATGTTGAACACAAAGAAATTCGGGGATATTGCATTTAGGGACAAGGATTTCAAGAGTGCAATTGATTATTATTCAAAGgtatt--gtcccttcactgaacttgtcttcatcaagcattgggtggtggatttttgaaaatgatatttgttgagttaccaattgattggatatctctccttgMapped 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|47829701|gb|CK119385.1|CK119385EST: TTGCTTTCAGAGACAAGGATTTCAAGAACTCAATTGAATACTACTCCAAG TTGGTGGGGATGATGCCGGTTCCTTCTGCAACAGTTTTCGCTAGACGGGCT
genomic: TTGCTTTCAGAGACAAGGATTTCAAGAACTCAATTGAATACTACTCCAAGgtgagaggaa ... tggtttccagTTGGTGGGGATGATGCCGGTTCCTTCTGCAACAGTTTTCGCTAGACGGGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGGACACAACAAGTGCAGGAGATGCTTAACACAAAAAAGTTCGGGGACATTGCTTTCAGAGACAAGGATTTCAAGAACTCAATTGAATACTACTCCAAGgtgagaggaaatagcaacaaatccataattctcggtgttcgaaaagaatttctaacctctgtatctatggtttccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC