Sequence
atgc intronic sequence ATGC exonic sequence...aattagaatctaagatattatctgtttttggcttttgctaaactaatttgccttagctaagctcgtcttatgtaatacctcttgtgttttatgtttccagCGTTTTGCTGCGGTGATAATGAGGATCAGAGAACCGAAGACTACAGCATTAATATTCGCCTCAGGGAAAATG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G13445.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G13445.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os03g45410.1 (Oryza sativa), 3'ss of exon 3
aattagaatctaagatattatctgtttttggcttttgctaaactaatttgccttagcta-agctcgtcttatgtaatacctcttgtgttttatgtttccagCGTTTTGCTGCGGTGATAATGAGGATCAGAGAACCGAAGACTACAGCATTAATATTCGCCTCAGGGAAAATG
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-cttagattgatttacactatgtcagtggcgcactatataatttcatactcatttgctgtaatttatgttttagtttgctaattcctcctttcataaacagCGTTTTGCTGCGGTTATCATGAGAATAAGAGAACCAAAAACTACAGCTCTGATATTTGCATCGGGTAAAATG
upper sequence: AT3G13445.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: LOC_Os12g39070.1 (Oryza sativa), 3'ss of exon 2
---aattagaatctaagatattatctgtttttggcttttgctaaactaatttgccttagctaagctcgtctta-tgtaatacctcttgtgttttatgtttccagCGTTTTGCTGCGGTGATAATGAGGATCAGAGAACCGAAGACTACAGCATTAATATTCGCCTCAGGGAAAATG
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tgcacactgaggttatagcatc-tctatctactccatccgttccaaaatataagcactgtaatatatgttttagtttgctaactcct---cttttcacaaacagCGTTTTGCTGCAGTTATCATGAGAATAAGAGAACCGAAAACTACAGCTCTGATATTTGCATCGGGTAAAATG
upper sequence: AT3G13445.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA03G04500.2 (Glycine max), 3'ss of exon 2
aattagaatctaagat-attatctgtttttggcttttgctaaactaatttgccttagctaagctcgtcttatg-taatacctcttgtgttttatgtttccagCGTTTTGCTGCGGTGATAATGAGGATCAGAGAACCGAAGACTACAGCATTAATATTCGCCTCAGGGAAAATG
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-cttgctattcagaatcattaattagcaaatgtattatacacgccagttctaattggttggtggtatactgtactgatgtttgtgatgtgtt-tgtttgcagCGTTTTGCTGCTGTGATTATGAGGATAAGAGATCCCAAAACAACTGCTCTAATTTTTGCTTCTGGCAAGATGMapped 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|164108066|gb|ES029304.1|ES029304EST: ATCTTAAAGCCATAGCTTTGCAGGCTCGGAATGCTGAATATAATCCCAAG CGTTTTGCTGCGGTGATAATGAGGATCAGAGAACCGAA
genomic: ATCTTAAAGCCATAGCTTTGCAGGCTCGGAATGCTGAATATAATCCCAAGgtatttgcat ... atgtttccagCGTTTTGCTGCGGTGATAATGAGGATCAGAGAACCGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgccttagctaagctcgtcttatgtaatacctcttgtgttttatgtttccagCGTTTTGCTGCGGTGATAATGAGGATCAGAGAACCGAAGACTACAGCATTAATATTCGCCTCAGGGAAAATG
aactaat putative branch site (score: 2)
tgtttcc putative PPT
ttatgtaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattagaatctaagatattatctgtttttggcttttgctaaactaatttgccttagctaagctcgtcttatgtaatacctcttgtgttttatgtttccagCGTTTTGCTGCGGTGATAATGAGGATCAGAGAACCGAAGACTACAGCATTAATATTCGCCTCAGGGAAAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - aatctaa
- - - - - - - - - - - -gtttttg
- - - - - - - - - - - - - - - gcttttg
- - - - - - - - - - - - - - - - - - - -aaactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - ctaagct