Sequence
atgc intronic sequence ATGC exonic sequenceGACTCTCGGTTCAAGTTCATCAGGGAATGTAGCTAGCTACATGGGTCAGATGGCCATGGCGATGGGGAAGTTAGGTACCCTTGAAGGATTTATCCGCCAGgtacgttacaattttgttgtttaacatcaaatgaaaaaagtattttgcagtcagttgatagaaccatcttattgtttgtggcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G06960.1 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G06960.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G361847_T04 (Zea mays), 5'ss of exon 9
GACTCTCGGTTC---AAGTTCATCAGGGAATGTAGCTAGCTACATGGGTCAGATGGCCATGGCGATGGGGAAGTTAGGTACCCTTGAAGGATTTATCCGCCAGgtacgttacaattttgttgtttaacatca----aatgaaaaaagtattttgcag--tcagtt---gatag-aaccatcttattgtttgtg-gcag
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---TCTCGGTCCAGCAGGTTCTTCAGGAAATGTGGCAAACTACATGGGTCAGATGGCCATGGCCATGGGCAAACTCGGGACGCTAGAGAATTTTCTTCGCCAAgtaagcatctactttgtatctttgtggggcggtactgtttatttggttttgctgcataagtttcgaatagtaattatgtt-ttatttatatgcag
upper sequence: AT5G06960.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA15G37220.1 (Glycine max), 5'ss of exon 7
GACTCTCGGTTCAAGTTCATCAGGGAATGTAGCTAGCTACATGGGTCAGATGGCCATGGCGATGGGGAAGTTAGGTACCCTTGAAGGATTTATCCGCCAGgtacgttacaattttgttgtttaacatcaaatgaaaaaagtattttgca---gtcagttgat--agaaccatcttattgtttgtggcag----------------
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ACCTGCCTCATCTGGTTCATCAGGGAATGTGGCAAATTACATGGGTCAAATGGCCATGGCCATGGGTAAGCTAGGGACACTTGAAGGGTTCATTCAACAGgtacttt----tttctttgttgcac-ttgtatacaaatagtttgctacattggtgaataagtgaagaagaatcttttagtccagccttgatttcctaatattatt
upper sequence: AT5G06960.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA13G26280.1 (Glycine max), 5'ss of exon 11
GACTCTCGGTTCAAGTTCATCAGGGAATGTAGCTAGCTACATGGGTCAGATGGCCATGGCGATGGGGAAGTTAGGTACCCTTGAAGGATTTATCCGCCAGgtacgttacaattttgttgtttaacatcaaatgaaaaaagtattttgcagtcagttgataga-accatcttattgtttgtggcag---------------------
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ACCTGCCTCATCTGGTTCATCAGGGAATGTGGCAAGTTACATGGGTCAAATGGCCATGGCCATGGGCAAGCTAGGGACACTAGAAGGGTTCATTCAACAGgtacatt----cttctttgttgcac-ttgtatgccaatagtttgctgca-ttagtgaataggtgaggacgagtcttttagtccagccttgatttcctaatattatt
upper sequence: AT5G06960.1 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: PP1S126_196V6.1 (Physcomitrella patens), 5'ss of exon 7
GACTCTCGGTTCA---AGTTCATCAGGGAATGTAGCTAGCTACATGGGTCAGATGGCCATGGCGATGGGGAAGTTAGGTACCCTTGAAGGATTTATCCGCCAGgtacgttacaattttgttgtttaacatcaaa----tgaaaaaagtattttgcag----tcagttgatagaaccat--cttattgtttgtggcag-----------------------------------------------------------------------------------------------
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---TGTTGGTTCTCTTGGCTCATCAGCAAATGTAGCTATTTATATGGGACAGATGGCCATGGCCATGGGGAAACTTGGCACACTTGAAGCTTTCATGTGTCAGgtatatatttatattgattttgcatagctgggtgttgtatggttttttatgcggcattttggttggaagtctcgaggcatgttgcttgtatcatctagcattatgtgggttgttctcagtaatgcagtacagtacgctattagccttttttttcaggtcagttaacgattgttttgatggttttgacagMapped 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|86084955|gb|DR380714.1|DR380714EST: TGGCCATGGCGATGGGGAAGTTAGGTACCCTTGAAGGATTTATCCGCCAG GCTGATAACTTAAGGCTACAAACATATCAACAGATGGTGAGACTATTAACA
genomic: TGGCCATGGCGATGGGGAAGTTAGGTACCCTTGAAGGATTTATCCGCCAGgtacgttaca ... tttgtggcagGCTGATAACTTAAGGCTACAAACATATCAACAGATGGTGAGACTATTAACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GACTCTCGGTTCAAGTTCATCAGGGAATGTAGCTAGCTACATGGGTCAGATGGCCATGGCGATGGGGAAGTTAGGTACCCTTGAAGGATTTATCCGCCAGgtacgttacaattttgttgtttaacatcaaatgaaaaaagtattttgcagtcagttgatagaaccatcttattgtttgtggcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG