Sequence
atgc intronic sequence ATGC exonic sequencegtaaactcctccctctttataagttttcgaagttatacttagatcattatttccggtactattgcgattgttccatttttgtgcaacttagattgcttatttcaaatatttttaaggacagtgagtgtttttgtggaaaaggcatgtgtttaaagttcataatgtaagtcgaaaacgatgtttacttttcagGTGTGCTTACACATGTTCACTCTGGATTTCCTTAACCAAGTTGCGAATGGGCTGGAAAAAGACAGCGT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G35020.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G35020.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA08G09170.2 (Glycine max), 3'ss of exon 12
gtaaactcctccctctttataagttttcgaagttatacttagatcattatttccggtactattgcgattgttccatttttgtgcaacttagattgcttatttcaaatatttttaaggacagtgagtgtttttgtggaaaaggcatgtgtttaaagttcataatgtaagtcgaaaacgatgtttacttttcagGTGTGCTTACACATGTTCACTCTGGATTTCCTTAACCAAGTTGCGAATGGGCTGGAAAAAGACAGCGT
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----------------------------------------------------------------------------------acagatcatgaaaat-attt---gtactttagagtttgattgttatttttactggc------tgagttttaagttatcttcaagatttctgattaaccttgtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGCCTTGAAAAAGACAGCAT
upper sequence: AT2G35020.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA05G26240.2 (Glycine max), 3'ss of exon 11
gtaaactcctccctctttataagttttcgaagttatacttagatcattatttccggtactattgcgattgttccatttttgtgcaacttagattgcttatttcaaatatttttaaggaca-gtgagtgtttttgtggaaaaggcatgtgtttaaagttcataatgtaagtcgaaaacgatgtttacttttcagGTGTGCTTACACATGTTCACTCTGGATTTCCTTAACCAAGTTGCGAATGGGCTGGAAAAAGACAGCGT
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------------------------------------------------------------------------------------agatataattactc-cttcaggtcttctttcttatgcatccatgtggttgccatcatagtg---gcttgttactcatgct-----tcattattaaccttgtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAATCAAGTGGCAAATGGCCTTGAAAAAGACAGCAT
upper sequence: AT2G35020.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv01s0011g01420.t01 (Vitis vinifera), 3'ss of exon 11
gtaaactcctccctctttataagttttcgaagttatacttagatcattatttccggtactattgcgattgttccatttttgtgcaacttagattgcttatttcaaatatttttaaggacagtgagtgtttttgtggaaaaggcatgtgtttaaagttcataatgtaagtcgaaaacgatgtttacttttcagGTGTGCTTACACATGTTCACTCTGGATTTCCTTAACCAAGTTGCGAATGGGCTGGAAAAAGACAGCGT
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------------------------------------------------------------------------------------------gcctttcaattttcagtgttatttaatattcaaaatggtattaaggatga--tttgattatatgctttgttttcttttcaatagtttgtttctgcttttcagGTGTGCTTACATATGTTTACTCTGGATTTTCTGAACCAAGTGGCAAATGGCCTTGAGAAAGACAGCATMapped 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|47828124|gb|CK117808.1|CK117808EST: CTTCTGCAACTAATCAACAAACAGGACGTCTTCAATATTGCTGGAGTAAC GTGTGCTTACACATGTTCACTCTGGATTTCCTTAACCAAGTTGCGAATGGG
genomic: CTTCTGCAACTAATCAACAAACAGGACGTCTTCAATATTGCTGGAGTAACgtaaactcct ... tacttttcagGTGTGCTTACACATGTTCACTCTGGATTTCCTTAACCAAGTTGCGAATGGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaggcatgtgtttaaagttcataatgtaagtcgaaaacgatgtttacttttcagGTGTGCTTACACATGTTCACTCTGGATTTCCTTAACCAAGTTGCGAATGGGCTGGAAAAAGACAGCGT
tttacttttc CT-rich tract
tttaaagttcataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaactcctccctctttataagttttcgaagttatacttagatcattatttccggtactattgcgattgttccatttttgtgcaacttagattgcttatttcaaatatttttaaggacagtgagtgtttttgtggaaaaggcatgtgtttaaagttcataatgtaagtcgaaaacgatgtttacttttcagGTGTGCTTACACATGTTCACTCTGGATTTCCTTAACCAAGTTGCGAATGGGCTGGAAAAAGACAGCGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA