Sequence
atgc intronic sequence ATGC exonic sequence...gtctaatcatatagaaagacttcagttttataaataaagttgctttttttttcttacattgagacgtatggactcaagctcatgtgtgttgttaacacagAAGGAGCTCGAAATGGGTCTCTCCCAAAGCAGCTGTTGTACCCAATTTCCATCTCCCAATGCGCAGCTTGGAGGTTAAAAACAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G45440.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G45440.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA09G40460.1 (Glycine max), 3'ss of exon 1
-gtctaatca-tatagaaagacttcagttttataaataaagttgctttttttttcttacattgagacgtatggactcaagctcatgtgtgttgttaacacagAAGGAGCTCGAAATGGGTCTCTCCCAAAGCAGCTGTTGTACCCAATTTCCATCTCCCAATGCGCAGCTTGGAGGTTAAAAACAG
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ggttttatcagtgtcatatatatatattgcgctgcagaaaaatgccactctttccaaattttggtatgt-tgatgttaaa---atatttgcctttattattca-gGAGCTCATATTGGAGGCCTGCACAAGCAGCCGTGAAGCCCAATTTCCATCTCCCAATGCGCAGTTTTGAGTTAAAAAATAG
upper sequence: AT2G45440.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA18G45380.1 (Glycine max), 3'ss of exon 1
--gtcta-atcatatagaaagacttcagttttataaataaagttgctttttttttcttacattgagacgtatggactcaagctcatgtgtgttgttaacacagAAGGAGCTCGAAATGGGTCTCTCCCAAAGCAGCTGTTGTACCCAATTTCCATCTCCCAATGCGCAGCTTGGAGGTTAAAAACAG
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ttatcagcgccatatatatgtgtgtgtataccggtgcagaaaataccactttttccaaattttggtatgtttgatgctaaatatttgtct-ttattaatc----aGGAGCTCATGTTGGAGGCCTACACAAGCAGCTGTGAAGTCCAATTTCCATCTCCCAATGCGCAGTTTTGAGTTAAAAAATA-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|19874977|gb|AU235808.1|AU235808EST: GACTCTGCTCTTCAATTCCCCTGTCCTAAGCTATTCAATAGCTACAAGAG AAGGAGCTCGAAATGGGTCTCTCCCAAAGCAGCTGNTGTACCCAATTTCCA
genomic: GACTCTGCTCTTCAATTCCCCTGTCCTAAGCTATTCAATAGCTACAAGAGgttatttctc ... gttaacacagAAGGAGCTCGAAATGGGTCTCTCCCAAAGCAGCTGTTGTACCCAATTTCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttttcttacattgagacgtatggactcaagctcatgtgtgttgttaacacagAAGGAGCTCGAAATGGGTCTCTCCCAAAGCAGCTGTTGTACCCAATTTCCATCTCCCAATGCGCAGCTTGGAGGTTAAAAACAG
tgttaac putative branch site (score: 2)
ttacatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctaatcatatagaaagacttcagttttataaataaagttgctttttttttcttacattgagacgtatggactcaagctcatgtgtgttgttaacacagAAGGAGCTCGAAATGGGTCTCTCCCAAAGCAGCTGTTGTACCCAATTTCCATCTCCCAATGCGCAGCTTGGAGGTTAAAAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - aatcata
- - - - - - -gaaagac
- - - - - - - - - - - - - - - -aaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actcaag