Sequence
atgc intronic sequence ATGC exonic sequenceGATGATGATGTTGACCTTTTCGGGGAGGAGACCGAAGAGGAAAAGAAAGCTGCTGAAGAGAGAGCAGCTTCTGTGAAGGCATCTACAAAGAAGAAAGAATgtaagtttgtgtttttgcctttacacctgtagtttacgatataatgatgtcttggatttctcatctggtttctttcttttcttaatcag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G18110.1 |
intron # | 4 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G18110.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os07g42300.2 (Oryza sativa), 5'ss of exon 5
GATGATGATGTTGACCTTTTCGGGGAGGAGACCGAAGAGGAAAAGAAAGCTGCTGAAGAGAGAGCAGCTTCTGTGAAGGCATCTACAAAGAAGAAAGAATgtaagtttgtgtttttgcctttacacctgtagtttacgatataatgatgtcttggatttctcatctggtttctttcttttcttaatcag----------------------------------------------------------------------------
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GATGACGATGTTGACCTTTTTGGTGAGGAGACTGAAGAGGAGAAGAAGGCAGCTGAGGAGCGTGCTGCTGCTGTCAAGGCTTCTGGCAAGAAGAAGGAATgtatgccatcctgcattatactataccatttttatgcaatg-aataatac----aattattcattttattttattctcatctgtagctgtaaattaagaccaaatcatcactattcattataatgcaaagtgctacttctaacttgtcaacacctttttattcag
upper sequence: AT2G18110.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: LOC_Os03g29260.1 (Oryza sativa), 5'ss of exon 5
GATGATGATGTTGACCTTTTCGGGGAGGAGACCGAAGAGGAAAAGAAAGCTGCTGAAGAGAGAGCAGCTTCTGTGAAGGCATCTACAAAGAAGAAAGAATgtaagtttgtgtttttgcctttacacctgtagtttacgatataatgatgtcttggatttctcatc-tggtttctttcttttcttaatcag----------
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GATGACGATGTTGATCTGTTTGGTGAGGAGACTGAAGAGGAGAAGAAAGCAGCAGAAGAACGGGCCGCAGCTGTCAAGGCTTCTGGAAAGAAGAAAGAATgtatgtatttcattgatttatggggtccctgcccattgctgcattgaggcacttacttttaggtagtgacaaatggttgaaggtgattaaaagaggaggg
upper sequence: AT2G18110.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G153569_T02 (Zea mays), 5'ss of exon 5
GATGATGATGTTGACCTTTTCGGGGAGGAGACCGAAGAGGAAAAGAAAGCTGCTGAAGAGAGAGCAGCTTCTGTGAAGGCATCTACAAAGAAGAAAGAATgtaagtttgtgtttttgcctttacacctgtagttt--acgatataatgatgtcttggatttctcatctggtttctttcttttcttaatcag-----------------------------------------
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GATGATGATGTTGACCTTTTTGGCGAGGAGACTGAAGAGGAGAAGAAGGCTGCTGAAGAACGTGCTGCGGCTGCCAAGGCTTCTGGCAAGAAGAAAGAATgtatgtcagtgtgcatagtttctgttttattctctcaatcacacacccttgctattgctatattgttgttgaggctttgtttcatacccaaaagctttaaagcatggttctaacctttccataccttgtcag
upper sequence: AT2G18110.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GRMZM2G031545_T03 (Zea mays), 5'ss of exon 5
GATGATGATGTTGACCTTTTCGGGGAGGAGACCGAAGAGGAAAAGAAAGCTGCTGAAGAGAGAGCAGCTTCTGTGAAGGCATCTACAAAGAAGAAAGAATgtaagtttgtg------tttttgcctttacacctgtagtttacgatataatg--atgtcttggatttctcatctggtttctttcttttcttaatcag-----------------------------------------------------------------------
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GACGATGATGTTGACCTTTTTGGTGAGGAGACCGAAGATGAGAAGAAGGCTGCTGAAGAGCGTGCTGCAGCTGCCAAGGCTTCTGGCAAGAAGAAAGAATgtatgtcagtgtgcatattttttctgtttcattctctcatcacactgtgttgacatgtgctgacactaatctataatgacacccttggaccactatatcgttttttgaagctctgtttgatatccaaaaacttgtgatttcatcaatcttctttccatacattgtcag
upper sequence: AT2G18110.1 (Arabidopsis thaliana), 5'ss of exon 4
lower sequence: GLYMA06G17930.4 (Glycine max), 5'ss of exon 5
GATGATGATGTTGACCTTTTCGGGGAGGAGACCGAAGAGGAAAAGAAAGCTGCTGAAGAGAGAGCAGCTTCTGTGAAGGCATCTACAAAGAAGAAAGAATgtaagtttgtgtttttgcctt---tacacctgtagtttacgatataatgatgtct-tggatttctcatc--tggtttctttcttttcttaatcag--------
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GATGATGATGTGGATTTGTTCGGTGAAGAGACAGAAGAAGAGAAGAAGGCAGCAGAGGAACGGGCAGCTGCAGTGAAGGCATCTACAAAAAAAAAAGAGTgtaagtttctttcttgtcactaattatctttgaactttatcctgtgctcttctccatataccactttgcaatggcattgattctctgttgattcccttttcagMapped 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|86079763|gb|DR375520.1|DR375520EST: TGCTGAAGAGAGAGCAGCTTCTGTGAAGGCATCTACAAAGAAGAAAGAAT CCGGAAAGTCATCAGTTTTGATGGATATCAAGCCGTGGGATGATGAGACGG
genomic: TGCTGAAGAGAGAGCAGCTTCTGTGAAGGCATCTACAAAGAAGAAAGAATgtaagtttgt ... tcttaatcagCCGGAAAGTCATCAGTTTTGATGGATATCAAGCCGTGGGATGATGAGACGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATGATGATGTTGACCTTTTCGGGGAGGAGACCGAAGAGGAAAAGAAAGCTGCTGAAGAGAGAGCAGCTTCTGTGAAGGCATCTACAAAGAAGAAAGAATgtaagtttgtgtttttgcctttacacctgtagtttacgatataatgatgtcttggatttctcatctggtttctttcttttcttaatcag
- - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA