Sequence
atgc intronic sequence ATGC exonic sequence...agcttgtaacttgaaacggttatgggatctagattactttagaatcaacaactgtggacttaactgttttgtcaaaacaatatctctttcaacattgcagACTGTACTGGAAGATTAAGTACGTGAGCAGGTTGCAGTACCTTTGGGAGGACATAAAGAAAGGCGAGGTGGAAATTCCCGACTTTGTGAAGAACCATGAC
Basic information
species | Arabidopsis thaliana |
transcript | AT3G10210.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G10210.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA03G28460.2 (Glycine max), 3'ss of exon 3
----agcttgtaacttgaaacggttatgggatctagattactttagaat-caacaactgtggacttaactgttttgtcaaaacaatatctctttcaacattgcagACTGTACTGGAAGATTAAGTACGTGAGCAGGTTGCAGTACCTTTGGGAGGACATAAAGAAAGGCGAGGTGGAAATTCCCGACTTTGTGAAGAACCATGAC
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caatacaaagtaacatgcgctaa--attggctgacaattgacccattgtatcacttttttgcacttaatcctttgggtttgttga---ctttgttgttggtttagATTATATTGGAAGATCAAGTATGTAAGCCGGCTTCAGTACCTTTGGGATGACATAAAGAAAGGAGAGATTGAGATACCGGATTTTGTGAAAAGTCATGATMapped 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|86061743|gb|DR357500.1|DR357500EST: CGTTCAAGACTTGTCATTGCCACTCTTGGCCGCCTTCTTTTAAGTGGAGG ACTGTACTGGAAGATTAAGTACGTGAGCAGGTTGCAGTACCTTTNNNAGGA
genomic: CGTTCAAGACTTGTCATTGCCACTCTTGGCCGCCTTCTTTTAAGTGGAGGgtaatcattt ... aacattgcagACTGTACTGGAAGATTAAGTACGTGAGCAGGTTGCAGTACCTTTGGGAGGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caacaactgtggacttaactgttttgtcaaaacaatatctctttcaacattgcagACTGTACTGGAAGATTAAGTACGTGAGCAGGTTGCAGTACCTTTGGGAGGACATAAAGAAAGGCGAGGTGGAAATTCCCGACTTTGTGAAGAACCATGAC
acttaac putative branch site (score: 3)
tctctttca putative PPT
aaaacaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agcttgtaacttgaaacggttatgggatctagattactttagaatcaacaactgtggacttaactgttttgtcaaaacaatatctctttcaacattgcagACTGTACTGGAAGATTAAGTACGTGAGCAGGTTGCAGTACCTTTGGGAGGACATAAAGAAAGGCGAGGTGGAAATTCCCGACTTTGTGAAGAACCATGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
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- - - - - ttgaaac
- - - - - - - - - - - - - - - - - - - - - - -caacaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -acttaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaacaa