Sequence
atgc intronic sequence ATGC exonic sequenceCTTTGGAAATGAAACATTATCTAGAATGGAGAAAGACTGTGTAGAGATCGATATAAAATATGAAGGTTTCATTGTTCGCCAGCAAAACCAACTGCAGCAGgtatcttgtgttagcttcattactccattaaatactacttgcttactcggatatatggacatggagttataagttatatccttaatag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G13440.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G13440.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GRMZM2G481548_T01 (Zea mays), 5'ss of exon 11
CTTTGGAAATGAAACATTATCTAGAATGGAGAAAGACTGTGTAGAGATCGATATAAAATATGAAGGTTTCATTGTTCGCCAGCAAAACCAACTGCAGCAGgtatct-----tgtgttagcttcattactccattaaata---ctact-tgcttactcggatatatggacatggagttataagttat-----atccttaatag-----------------------------------------------------------------------------------------------
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ATGCGGAAATGAAAATTTATCTCGAATTGAGAAGGAATGTGTAGAGATTGATATCAAGTATGAAGGTTTCATCGCACGACAACAAAGTCAATTACATCAGgtaattgcttatggggttatgcgatagtgttatggagtagatttacgatggaagctgaactgctagaacaatggtacatgaatcgttcgagatgtccaacagtagcacattatgcatgatttcatttgttttgttttgttttgtttaattgataaggcagctaacttttgtgttgtttgttttctctctttgttaag
upper sequence: AT2G13440.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA05G32720.1 (Glycine max), 5'ss of exon 8
CTTTGGAAATGAAACATTATCTAGAATGGAGAAAGACTGTGTAGAGATCGATATAAAATATGAAGGTTTCATTGTTCGCCAGCAAAACCAACTGCAGCAGgtatcttgtgttagcttcattactcca--ttaaatactacttgcttactcggatatatggacatggagtta---taagttatatccttaatag--------------------------------------------------------
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TTTCGGCGACAAAAGCTTATCAAGAATGGAGAAAGAATGTGTCGAGATTGATATAAAGTATGAAGGTTTCATCTTGCGTCAGCAAAGCCAACTTCAACAGgtatttgttacacttgtcaatgaggaaaagtgaatgtttttttgctgtgtcaacatcacaaccctaaatcattttaatttttacacattttagaatttcagcttggtatttaacttgaaatctcattgttgtgatggatttacctatag
upper sequence: AT2G13440.1 (Arabidopsis thaliana), 5'ss of exon 11
lower sequence: GLYMA08G00380.1 (Glycine max), 5'ss of exon 10
CTTTGGAAATGAAACATTATCTAGAATGGAGAAAGACTGTGTAGAGATCGATATAAAATATGAAGGTTTCATTGTTCGCCAGCAAAACCAACTGCAGCAGgtatcttgtgttagcttcattactccattaaatactacttgcttactcgg-----atatatggacatggagttat---aagttatatccttaatag---------------------------------------------------------------
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TTTCGGTGACAAAAGCTTATCAAGAATGGAGAAAGAATGTGTTGAGATTGATATAAAGTATGAAGGTTTCATCTTGCGTCAGCAAAGCCAACTTCAACAGgtatttgttac--actttgtcaatgagaaaaagtgaatctgtttttgctgtgtcaacatgacaaccctaaatcattttaatttttacacattttagcatttcagttttcagctgtgtatttaacgtgaaatctcattgttgtgatggatttacctatagMapped 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|86084836|gb|DR380595.1|DR380595EST: ATATAAMATATGAAGGTTTCATTGTTCGCCAGCAAAACCAAATGCAGCAG ATGGTCCACCAACAACATAGACGACTTCCAGACAATTTGGATTACTATTCG
genomic: ATATAAAATATGAAGGTTTCATTGTTCGCCAGCAAAACCAACTGCAGCAGgtatcttgtg ... tccttaatagATGGTCCACCAACAACATAGACGACTTCCAGACGATTTGGATTACTATTCG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTTTGGAAATGAAACATTATCTAGAATGGAGAAAGACTGTGTAGAGATCGATATAAAATATGAAGGTTTCATTGTTCGCCAGCAAAACCAACTGCAGCAGgtatcttgtgttagcttcattactccattaaatactacttgcttactcggatatatggacatggagttataagttatatccttaatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG