Sequence
atgc intronic sequence ATGC exonic sequencegtatatactttgttctctggcattgttttagcggttagtactaactttatttggtgctaatcttacaagttttctgtttgtagGTGACTAAGGTTGTACCTGCTGTTACGGAAGAAGTGAAAGATGCACTTGTGAAGAACATTAGGAGGAGAATGACACCACAACCAATGAAAATCCGGGCTG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G40290.3 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G40290.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G35600.1 (Glycine max), 3'ss of exon 3
gtatatactttgttctctggcattgttttagcggttagtactaactttatttggtgctaa-tcttacaagttttctgtttgtagGTGACTAAGGTTGTACCTGCTGTTACGGAAGAAGTGAAAGATGCACTTGTGAAGAACATTAGGAGGAGAATGACACCACAACCAATGAAAATCCGGGCTG
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gtaaatatttt--tatcagagtaaaactgaccacatcttgcaagtcttgtttatgactaaatgtttttttattgtcgctcatagGTGACTAAGGTGGTGCCAGCTGTATCAGAAGAAGTGAAGGATTCTCTTGTGAAGAATATTAGAAGACGAATGACCCCCCAACCCTTGAAAATTAGGGCAG
upper sequence: AT2G40290.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv06s0004g07100.t01 (Vitis vinifera), 3'ss of exon 3
---------gtatatactttgttctc-tggcattgttttagcggttagtact---aactttatttggtgctaat-----cttacaagttttctgt-ttgtagGTGACTAAGGTTGTACCTGCTGTTACGGAAGAAGTGAAAGATGCACTTGTGAAGAACATTAGGAGGAGAATGACACCACAACCAATGAAAATCCGGGCTG
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gtaatggtggtgtatctgttgtctttactgcactacgttggca-taaatactgaaaaccatatctcatattaaaggccacttgtcatttactcgtattacagGTGACCAAAGTGATCCCTGCTATGTCAGAGGAGGTGAAGGATTCTTTGATCAAGAACATTAGAAGGCGAATGACACCACAACCATTAAAAATCCGTGCTG
upper sequence: AT2G40290.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: EFJ25833 (Selaginella moellendorffii), 3'ss of exon 4
gtatatactttgttctctggcattgttttagcggttagtactaactttatttggtgctaatcttacaagttttctgtttgtagGTGACTAAGGTTGTACCTGCTGTTACGGAAGAAGTGAAAGATGCACTTGTGAAGAACATTAGGAGGAGAATGACACCACAACCAATGAAAATCCGGGCTG
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------------------------gtactaaaaactggtcatt-ctttctcttttatt--ttctgctctattgcctttttcagGTTACGAAGACGGTTCCAGCAGTGACGGAAGAAGTCAAAGATGCTCTTGTGAAGAACGTCCGGAGGCGAATGACGCCCCAGCCACTGAAGATCAGAGCCGMapped 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|163993717|gb|EL996594.1|EL996594EST: TGGGTCCTCTCACCCGTGAGATCAAAGAAGTTGGGCCTGATGGGCAAGAG GTGACTAAGGTTGTACCTGCTGTTACGGAAGAAGTGAAAGA
genomic: TGGGTCCTCTCACCCGTGAGATCAAAGAAGTTGGGCCTGATGGGCAAGAGgtatatactt ... ctgtttgtagGTGACTAAGGTTGTACCTGCTGTTACGGAAGAAGTGAAAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagcggttagtactaactttatttggtgctaatcttacaagttttctgtttgtagGTGACTAAGGTTGTACCTGCTGTTACGGAAGAAGTGAAAGATGCACTTGTGAAGAACATTAGGAGGAGAATGACACCACAACCAATGAAAATCCGGGCTG
ttttctgttt CT-rich tract
tactaactttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatactttgttctctggcattgttttagcggttagtactaactttatttggtgctaatcttacaagttttctgtttgtagGTGACTAAGGTTGTACCTGCTGTTACGGAAGAAGTGAAAGATGCACTTGTGAAGAACATTAGGAGGAGAATGACACCACAACCAATGAAAATCCGGGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA