Sequence
atgc intronic sequence ATGC exonic sequencegtttgttgctttctgccaactcagttgcattatggttttaaccttccagtttttgaatccagaaaccttttaaatgtgtaacagGATGCTGAAGAATGTTGGACACAAATGTTGTACACTCTTTCCCAGTCCCTAAAACTGCCATCGCCTAGTGAAGATCCTGATGCTGTGAAGGCTCTTTTTG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G21280.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G21280.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA08G20900.1 (Glycine max), 3'ss of exon 7
gtttgttgctttc-tgccaactcagttgcattatggttttaaccttccagtttttgaatccagaaacct-----------tttaaatgtgt-aacagGATGCTGAAGAATGTTGGACACAAATGTTGTACACTCTTTCCCAGTCCCTAAAACTGCCATCGCCTAGTGAAGATCCTGATGCTGTGAAGGCTCTTTTTG
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gtttttaagtttcatgccacctta-tggaatta--gttttattgctctagtagt-gaatatgtatacctatctattttatttttcatgtcttaacagGATGCTGAAGAATGTTGGACACAACTTCTATACACTCTCTCTCAGTCCCTCAGATCCCTTGGAATTAG--------------------------------
upper sequence: AT3G21280.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA07G01480.1 (Glycine max), 3'ss of exon 7
gtttgttgctttc-tgccaactcagttgcattatggttttaaccttccagt------ttttgaatccagaaacc---ttttaaatgtgtaacagGATGCTGAAGAATGTTGGACACAAATGTTGTACACTCTTTCCCAGTCCCTAAAACTGCCATCGCCTAGTGAAGATCCTGATGCTGTGAAGGCTCTTTTTG
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gtttttaagttgcatgccacctta-tggaatta--gttttattgctctagtagtgaactgtatacctacctattttatttttcatgtctaatagGATGCTGAAGAATGTTGGACACAACTTTTATACACACTCTCTCAGTCCCTCAGATCCCCTGGATCTAG--------------------------------
upper sequence: AT3G21280.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv09s0002g02500.t01 (Vitis vinifera), 3'ss of exon 7
gtttgttgctttctgccaactcagttgcatta-------tggttttaaccttccagtttttgaatccagaaaccttttaaatgtgtaacagGATGCTGAAGAATGTTGGACACAAATGTTGTACACTCTTTCCCAGTCCCTAAAACTGCCATCGCCTAGTGAAGATCCTGATGCTGTGAAGGCTCTTTTTG
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gttttcaattcttttgtcacccagtcatagcagtgtaactgctttaaatctgttagtaaattaattcatacat-tttaaaacttatgacagGATGCTGAGGAATGTTGGACACAACTTTTATACACTCTTTCTCAGTCACTTAGATCACCTGGTTCCAG--------------------------------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|86069923|gb|DR365680.1|DR365680EST: NNNN-TATCCTCAGTTTGCTCAGTTGCATAACGGAAATCACATGCAACAG GATGCTGAAGAATGTTGGACACAAATGTTGTACACTCTTTCCCAGTCCCTA
genomic: AAAAATATCCTCAGTTTGCTCAGTTGCATAACGGAAATCACATGCAACAGgtttgttgct ... tgtgtaacagGATGCTGAAGAATGTTGGACACAAATGTTGTACACTCTTTCCCAGTCCCTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatggttttaaccttccagtttttgaatccagaaaccttttaaatgtgtaacagGATGCTGAAGAATGTTGGACACAAATGTTGTACACTCTTTCCCAGTCCCTAAAACTGCCATCGCCTAGTGAAGATCCTGATGCTGTGAAGGCTCTTTTTG
ttttaac putative branch site (score: 2)
ttttaaatgtgtaa TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgttgctttctgccaactcagttgcattatggttttaaccttccagtttttgaatccagaaaccttttaaatgtgtaacagGATGCTGAAGAATGTTGGACACAAATGTTGTACACTCTTTCCCAGTCCCTAAAACTGCCATCGCCTAGTGAAGATCCTGATGCTGTGAAGGCTCTTTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG