Sequence
atgc intronic sequence ATGC exonic sequencegtaacaaaactcttatagcaatctctatacctagttttttttcttctataaaatgcataaaactttaaatattgaactactttttttaacctatcagGCGTGTAAGGACGAATATATGGCGGAGTTACGGTGGTGACCGGAGGTTTTATCTCCAACGGCAAAGATTTGCCGGTTACCAGTCAGAAATAGCTCGTTCT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G28110.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G28110.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G19910.1 (Glycine max), 3'ss of exon 3
---gtaacaaaactcttatagcaatctctatacctagttttttttcttctataaaatgcataaa-actttaaatattgaactactttttttaacctatcagGCGTGTAAGGACGAATATATGGCGGAGTTACGGTGGTGACCGGAGGTTTTATCTCCAACGGCAAAGATTTGCCGGTTACCAGTCAGAAATAGCTCGTTCT-
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tgatttatagcaaatttgtgatatttatgaagaagaagaaatattctttaattacttgtatttttatttttgttaatgaatt--ttctgttaacctttgcagGAAGTGCGGACGGTGATATGGAGGAAGTTCAACGGTGACCGGAGGTTTTACCTGCAGAGGCATAGGTTTGCCGGTTACCAGTCAGAGATTGCACGTTCGG
upper sequence: AT2G28110.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA12G08530.1 (Glycine max), 3'ss of exon 3
gtaacaaaactcttatagcaatctctatacctagttttttttcttctataaaatgcataa---aactttaaatattgaact-actttttttaacctatcagGCGTGTAAGGACGAATATATGGCGGAGTTACGGTGGTGACCGGAGGTTTTATCTCCAACGGCAAAGATTTGCCGGTTACCAGTCAGAAATAGCTCGTTCT
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-tagcaaatttgtcgtatttatgaagaaaaagatattctttaattacttgtattttattatttatttatttttactgaatttactgttttaaactttgaagGAAAGTGCGGACGGTGATATGGAGGAAGTTCAACGGTGATCGGCGGTTTTACCTGCAGAGGCAAAGGTTTGCCGGTTACCAGTCAGAGATTGCACGTTCGMapped 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|116438933|gb|EG481525.1|EG481525EST: GGCAAGATGGAACTTCATCCCAAAAACATCAGTGGACGCTTCTATAGCAA GCGTGTAAGGACGAATATATGGCGGAGTTACGGTGGTGACCGGAGGTTTTA
genomic: GGCAAGATGGAACTTCATCCCAAAAACATCAGTGGACGCTTCTATAGCAAgtaacaaaac ... aacctatcagGCGTGTAAGGACGAATATATGGCGGAGTTACGGTGGTGACCGGAGGTTTTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttctataaaatgcataaaactttaaatattgaactactttttttaacctatcagGCGTGTAAGGACGAATATATGGCGGAGTTACGGTGGTGACCGGAGGTTTTATCTCCAACGGCAAAGATTTGCCGGTTACCAGTCAGAAATAGCTCGTTCT
ttttaac putative branch site (score: 2)
cttttttta CT-rich tract
ataaaactttaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacaaaactcttatagcaatctctatacctagttttttttcttctataaaatgcataaaactttaaatattgaactactttttttaacctatcagGCGTGTAAGGACGAATATATGGCGGAGTTACGGTGGTGACCGGAGGTTTTATCTCCAACGGCAAAGATTTGCCGGTTACCAGTCAGAAATAGCTCGTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG