Sequence
atgc intronic sequence ATGC exonic sequenceGTCGATTTCTTGGTGAGATAACAAAGCAAGTCTTCTCTGACCTTGAAGCTAGTAAATATCAGgtaaacgccacatgcatctttgttatttttattcttgatcaactgcagtggtcttatgcatttagaacgaacattataagagaggaacactgttagaatc...
Basic information
species | Arabidopsis thaliana |
transcript | AT2G38280.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G38280.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os05g28180.3 (Oryza sativa), 5'ss of exon 2
--------------------------------------GTCGATTTCTTGGTGAGATAACAAAGCAAGTCTTCTCTGACCTTGAAGCTAGTAAATATCAGgtaaacgccacatgcatctttgttatttttattcttgatcaactgcagtggtcttatgcatttagaacgaacattataagagaggaacactgttagaatc
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TATTAACATTTTATCTGTTGCTGTTTGGTTTAAACTAGGTCGTTTTCTTGCCGAGCTAACAAAGCAAGTTTTCTCCGACCTTACAGCAAGTAAATACCAGgtaaactcctcttttttttttggtatatgcaaatgtaat--gct-tatttgagatatccatatttaacctgctctaatttttgttttcaccag-------
upper sequence: AT2G38280.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: LOC_Os05g28180.2 (Oryza sativa), 5'ss of exon 7
GTCGATTTCTTGGTGAGATAACAAAGCAAGTCTTCTCTGACCTTGAAGCTAGTAAATATCAGgtaaacgccacatgcatctttgttatttttattcttgatcaactgcagtggtcttatgcatttagaacgaacattataagagaggaacactgttagaatc
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GTCGTTTTCTTGCCGAGCTAACAAAGCAAGTTTTCTCCGACCTTACAGCAAGTAAATACCAGgtaaactcctcttttttttttggtatatgcaaatgtaat--gct-tatttgagatatccatatttaacctgctctaatttttgttttcaccag-------
upper sequence: AT2G38280.1 (Arabidopsis thaliana), 5'ss of exon 10
lower sequence: GRMZM2G416667_T01 (Zea mays), 5'ss of exon 10
GTCGATTTCTTGGTGAGATAACAAAGCAAGTCTTCTCTGACCTTGAAGCTAGTAAATATCAGgtaaac-gccacatgcatctttgttatttttattcttgatcaactgcagtggtcttatgcatttagaac--gaacattataagagaggaacactgttagaatc
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GCCGTTTTCTTGCTGAGTTGACAAAGCAAGTTTTCTCTGACCTTTCTGCTAGCAAATATCAGgtaaactgtcagctggata---acttttttagtttttaatt-----cagaagtacttcttatttgatatcttgttactttatccctaatatgctatttcag--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|125118618|gb|EL167270.1|EL167270EST: CAAGTCTTCTCTGACCTTGAAGCTAGTAAATATCAG ATGGCTGAATACAGAATATCTATATATGGCAGAAAAATGAGCGAGTGGGAC
genomic: CAAGTCTTCTCTGACCTTGAAGCTAGTAAATATCAGgtaaacgcca ... aacactgcagATGGCTGAATACAGAATATCTATATATGGCAGAAAAATGAGCGAGTGGGAC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTCGATTTCTTGGTGAGATAACAAAGCAAGTCTTCTCTGACCTTGAAGCTAGTAAATATCAGgtaaacgccacatgcatctttgttatttttattcttgatcaactgcagtggtcttatgcatttagaacgaacattataagagaggaacactgttagaatc
- - - - - - - - - - - AAGCAA
- - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agaacgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataagaga