Sequence
atgc intronic sequence ATGC exonic sequencegtaggcaaatctgcattcaggaactttgatcataatctttgttatactttgtctgtggaaatgtagtaaaccgtctttgacttggtttacagACAAGCTCTAAAACCATCAGCAAGCTAGCACATCCCAATGCACCCCTTGGTTACGGGCTTTGCTTCTTAAACCTTGCCTTTGATGGATTCACAAACGCAA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G14360.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G14360.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA02G02330.1 (Glycine max), 3'ss of exon 5
-gtaggcaaatct--gcattcaggaactttgatc------ataatctttgttatactttgtctgtggaaatgtagtaaaccgtctttgacttggtttacagACAAGCTCTAAAACCATCAGCAAGCTAGCACATCCCAATGCACCCCTTGGTTACGGGCTTTGCTTCTTAAACCTTGCCTTTGATGGATTCACAAACGCAA
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gttaggaagttctcagaataacagagctcttccttcttatatagggattttcatagtctatgaattgcagcttagctttatttgtttatgcctgattacagACTAGCTCTAAGACTATCAGCAAGCTGGCACATCCAAATGCTCCCCTTGGATATGGGTTGTGTTTCCTGAACCTTGCTTTTGATGGATTTACCAATGCAA
upper sequence: AT1G14360.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA01G05170.1 (Glycine max), 3'ss of exon 5
gtaggcaaatctgcattcagg-aactttgatcataatctttgttatactttgtctgtgga--aatgtagtaaaccgtctttgacttg-----gtttacagACAAGCTCTAAAACCATCAGCAAGCTAGCACATCCCAATGCACCCCTTGGTTACGGGCTTTGCTTCTTAAACCTTGCCTTTGATGGATTCACAAACGCAA
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gtttggaagttctcagaaaagcagagctcttccttctcttgtagggattttcatagtcaatgaatgcagcttagctttatttgtttatgcctgattacagACTAGCTCAAAGACTATCAGCAAGCTGGCACATCCAAATGCTCCCCTTGGATATGGGTTGTGTTTCCTGAACCTTGCTTTTGATGGATTTACCAATGCAA
upper sequence: AT1G14360.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv01s0026g01890.t01 (Vitis vinifera), 3'ss of exon 5
-----------------------------gtaggcaaatctg-cattcaggaactttg--atcataatcttt---gttatactttgtctgtgga--aatgtagtaaaccgtctttgacttggtttacagACAAGCTCTAAAACCATCAGCAAGCTAGCACATCCCAATGCACCCCTTGGTTACGGGCTTTGCTTCTTAAACCTTGCCTTTGATGGATTCACAAACGCAA
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gtgaggatcatatatataagttatcagtggtggatcatcctgacaaaaaaataatatagcatcgggagttttttggttttaatttgcttgagttttgtttttctcatgcatactcgggttgatt--cagACTAGTTCCAAGACAATTAGCAAGTTGGCACGCCCAAATGCACCACTTGGATATGGGCTCTGTTTCTTGAACCTTGCATTTGATGGATTCACAAATGCCAMapped 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|116432753|gb|EG475345.1|EG475345EST: TTTGCACCTTTCTTGTTGCCGGAGGAGTATCTATGTTTGCCCTTCTTAAG ACAAGCTCTAAAACCATCAGCAAGCTAGCACATCCCAATGCACCCCTTGGT
genomic: TTTGCACCTTTCTTGTTGCCGGAGGAGTATCTATGTTTGCCCTTCTTAAGgtaggcaaat ... tggtttacagACAAGCTCTAAAACCATCAGCAAGCTAGCACATCCCAATGCACCCCTTGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgttatactttgtctgtggaaatgtagtaaaccgtctttgacttggtttacagACAAGCTCTAAAACCATCAGCAAGCTAGCACATCCCAATGCACCCCTTGGTTACGGGCTTTGCTTCTTAAACCTTGCCTTTGATGGATTCACAAACGCAA
ctttgac putative branch site (score: 4)
tatacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggcaaatctgcattcaggaactttgatcataatctttgttatactttgtctgtggaaatgtagtaaaccgtctttgacttggtttacagACAAGCTCTAAAACCATCAGCAAGCTAGCACATCCCAATGCACCCCTTGGTTACGGGCTTTGCTTCTTAAACCTTGCCTTTGATGGATTCACAAACGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA