Sequence
atgc intronic sequence ATGC exonic sequence...gatatataaagggaattgatttctgtacttgtcggtatgttatcttgtatgcttactcttattactcatttatgatgttcttcaaatgttttgctcttagTGTGGATGAGCTTAGGAAGCTTCTCTCTGACAAGGATGCGTATCAACAGTTTCTGCACTCGCTTGACCAGGTCACTATTCAAAACAAT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G36680.2 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G36680.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA03G34540.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------------------------------gatat-ataaagggaattgat-ttctgtacttgtcggtatgttatcttgtatgc-ttactcttattactcatttatgatgttctt---caaatgttttgctctt----------agTGTGGATGAGCTTAGGAAGCTTCTCTCTGACAAGGATGCGTATCAACAGTTTCTGCACTCGCTTGACCAGGTCACTATTCAAAACAAT
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gtttgagttttcatcgtttattcgcttttcatggttttagttgtatctgatttgtaaatggaaaatagttaggaagggtgctgttagtcgtacaattagtactttctacttactctgatgttgtgaaatgtgaattgttcaaattttccaaatatgccgatcttagttattttttctgctctttataaattgcagTGTTGATGAGTTGCGGAAGCTTTTATCTGACAAAGATGCGTATCAACAGTTTTTGCATTCGCTTGATCAGGTCAAGATTCAAAATAAT
upper sequence: AT2G36680.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA19G37230.2 (Glycine max), 3'ss of exon 2
------------------------------------------------------------------------gatatataaagggaattgatttctgtacttgtcggtatgttatcttgtatgcttactcttattactcatttatgatgttcttcaaatgttttgctctt----------agTGTGGATGAGCTTAGGAAGCTTCTCTCTGACAAGGATGCGTATCAACAGTTTCTGCACTCGCTTGACCAGGTCACTATTCAAAACAAT
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gtttgtgtttttatcgcttttcatgattttagttgtatctgattttgtaaatggaaaatagttaggaaggttgccgttaatcgtagaattagtacttt-ctagttactctgatgttgtgaactgttcctattttcaaatatgc-tgatcttaattaatttttctgctctttataaattgcagTGTTGATGAGTTGCGGAAGCTTTTATCTGACAAAGATGCGTATCAACAGTTTTTGCATTCACTTGATCAGGTCAAGATTCAAACTAAT
upper sequence: AT2G36680.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA20G19470.1 (Glycine max), 3'ss of exon 1
------------------------------------------------------------gatatataaagggaattgatttctgtacttgtcggtatgttatcttgta-------------tgcttactctt--attactcatttatgatgttct---tcaaatgttttgctctt----------agTGTGGATGAGCTTAGGAAGCTTCTCTCTGACAAGGATGCGTATCAACAGTTTCTGCACTCGCTTGACCAGGTCACTATTCAAAACAAT
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gtctgtgtttttatcgcttttcatgattttagttgtatctgattttgtaaatgaaaaatagttaggaagggaggaaggatgtcattaatcatagaattagtactttctagttactctgatgttgtgaactcttccaattttcaaatatgctgatcttaattaatttttctgctctttataaattgtagTGTTGATGAGTTGCAGAAGTTTTTATCTGACAAAGATGCGTATCAACAATTTTTGCATTCGCTTGATCAGGTCAACATTCAAACTAATMapped 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|164170245|gb|ES035202.1|ES035202EST: CGGCATTATTGCCATTTTAAAAGACAAAAG TGTGGATGAGCTTAGGAAGCTTCTCTCTGACAAGGATGCGTATCAACAGTT
genomic: CGGCATTATTGCCATTTTAAAAGACAAAAGgttagtcttc ... ttgctcttagTGTGGATGAGCTTAGGAAGCTTCTCTCTGACAAGGATGCGTATCAACAGTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtatgcttactcttattactcatttatgatgttcttcaaatgttttgctcttagTGTGGATGAGCTTAGGAAGCTTCTCTCTGACAAGGATGCGTATCAACAGTTTCTGCACTCGCTTGACCAGGTCACTATTCAAAACAAT
tgcttac putative branch site (score: 2)
ttttgctctt putative PPT
ttattactcatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatatataaagggaattgatttctgtacttgtcggtatgttatcttgtatgcttactcttattactcatttatgatgttcttcaaatgttttgctcttagTGTGGATGAGCTTAGGAAGCTTCTCTCTGACAAGGATGCGTATCAACAGTTTCTGCACTCGCTTGACCAGGTCACTATTCAAAACAAT
- - - -aaagggaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttcaaa