Sequence
atgc intronic sequence ATGC exonic sequenceGACTGGATTGCGTGGGCGGAACCACAGTACAATTTTAATCCCATGATAGATGAATGGTGCAAGGAAGCTCCAAGAGAACTAGACTTCAATATTGAAGCTGgtatgcttcacttgcattaataatgaatagccttaaatttcattctgtgataaactataatagcaccaaagcttgtgattgccttccatgatcaagttca...
Basic information
species | Arabidopsis thaliana |
transcript | AT5G24810.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G24810.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: LOC_Os06g48770.2 (Oryza sativa), 5'ss of exon 6
GACTGGATTGCGTGGGCGGAACCACAGTACAATTTTAATCCCATGATAGATGAATGGTGCAAGGAAGCTCCAAGAGAACTAGACTTCAATATTGAAGCTGgtatgcttcacttgcattaataatgaatagccttaaatttca--------------ttctgtga-taaactataatagcaccaaagcttgtgatt--gccttccatgatcaagttca-----------------------------------
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GAATGGATTGCATGGGCAGAGCCTCAATATAATTTTAACCCGATGATAGATGAATGGTGCAAGGAGGCACCAAAGGAACTTGATTTCAACCATGAGGCAGgtaattacccctttcagttctcatactcctctctccatataaaagaacatgcatgctcttgtgactcatccatattttttttaaaagtaaaggtctagtcactaatgaacatatcatcctgataatgtatgctataaaatccttaattttag
upper sequence: AT5G24810.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GRMZM2G140917_T01 (Zea mays), 5'ss of exon 7
GACTGGATTGCGTGGGCGGAACCACAGTACAATTTTAATCCCATGATAGATGAATGGTGCAAGGAAGCTCCAAGAGAACTAGACTTCAATATTGAAGCTGgtatgcttc--acttgcattaataatga-atagccttaaatttcattctgtgataaactataatagcaccaaagcttgtgattgccttccatgatcaa--gttca-----------------------------------------------
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GAATGGATAGCGTGGGCAGAGCCTCAGTATGATTTTAATCCGATGATTGATGAATGGTGCAAGGAGGCTCCAAAGGAACTTGATTTCAACCATGAAGCAGgtattttccttgctcaggttcatactcatattgccatatgcttctctgcacgattttccatg-tcctgtccctctttttaaatagagtcaaagcctagtggctcatgaagaggttgtcttgataatgtgtggtataaattcttcaattttag
upper sequence: AT5G24810.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA14G20110.1 (Glycine max), 5'ss of exon 6
GACTGGATTGCGTGGGCGGAACCACAGTACAATTTTAATCCCATGATAGATGAATGGTGCAAGGAAGCTCCAAGAGAACTAGACTTCAATATTGAAGCTGgtatgcttcacttgcattaataatgaatagccttaaatttcat---tctgtgataaactataatagcaccaaagcttgtgattgccttccatgatcaagttca----
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GACTGGATTGCATGGGCTGAGCCACAATATAACTTTAATCCTATGATCGATGAATGGTGCAAAGAAGCTCCTAAGGAACTTGACTTCAATCATGAAGCTGgtattttcggat--cttttataa-aatttgcatttgatgtaatagatctaaattaatgcttgaaaatatc----tttggtgtattttgttggagataagttcttgga
upper sequence: AT5G24810.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA17G24420.1 (Glycine max), 5'ss of exon 5
GACTGGATTGCGTGGGCGGAACCACAGTACAATTTTAATCCCATGATAGATGAATGGTGCAAGGAAGCTCCAAGAGAACTAGACTTCAATATTGAAGCTGgtatgcttcacttgcattaataatgaatagccttaaatttcattctgtgataaactataatagcaccaaagcttgtgattgccttccatgatcaagttca----
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GACTGGATTGCATGGGCTGAGCCGCAATATAACTTTAATCCTATGATCGATGAATGGTGCAAAGAAGCTCCTAAGGAACTTGACTTCAATCATGAAGCTGgtattttcagatcttttctaaaatttgta---tttgatgtaatag-atataaatttatgcttggaaatatctttggtgtattttgttggagataagttcttggaMapped 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|125296886|gb|EL310971.1|EL310971EST: TGAATGGTGCAAGGAAGCTCCAAGAGAACTAGACTTCAATATTGAAGCTG AAAATACTAGAACAGTATCCGGGAATCTCGGGTG
genomic: TGAATGGTGCAAGGAAGCTCCAAGAGAACTAGACTTCAATATTGAAGCTGgtatgcttca ... taatatgtagAAAATACTAGAACAGTATCCGGGAATCTCGGGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GACTGGATTGCGTGGGCGGAACCACAGTACAATTTTAATCCCATGATAGATGAATGGTGCAAGGAAGCTCCAAGAGAACTAGACTTCAATATTGAAGCTGgtatgcttcacttgcattaataatgaatagccttaaatttcattctgtgataaactataatagcaccaaagcttgtgattgccttccatgatcaagttca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccttccat