Sequence
atgc intronic sequence ATGC exonic sequencegtaacttggtttatttcaaattgtgcaagcgattacatcatcagaatatcactaaattatacctcacatggatggaacttgcagTATCTTCCAATTGAGGGGTTGGCAGCATTCAACAAGGCTACTGCTGAGTTGCTATTTGGAGCTGGTCATCCTGTTATTAAGGAACAAAGA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G31990.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G31990.4 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA17G33050.4 (Glycine max), 3'ss of exon 4
gtaacttggtttatttcaaat-----tgtgcaagcgattacatcatcagaatatcactaaattat-acctcacatggatggaacttgcagTATCTTCCAATTGAGGGGTTGGCAGCATTCAACAAGGCTACTGCTGAGTTGCTATTTGGAGCTGGTCATCCTGTTATTAAGGAACAAAGA
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gtaattttctttacatcacgtgtctttgtgtgtggtgtggaaccattgg----cctttagattgttaactatgataacttgtaagtgcagTATCTCCCAATTGAGGGTTTGGCAGCATTTAATAAGGCAACTGCAGAGTTGTTACTCGGAGCAGACAACCCAGCAATCAAACAGCAAAGA
upper sequence: AT4G31990.4 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA14G13480.2 (Glycine max), 3'ss of exon 4
gtaacttggtttatttcaaat-tgtgcaagcgattacatcatcagaatatcactaaattatacctcacatggatggaacttgcagTATCTTCCAATTGAGGGGTTGGCAGCATTCAACAAGGCTACTGCTGAGTTGCTATTTGGAGCTGGTCATCCTGTTATTAAGGAACAAAGA
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gtaattttctttacatcatgtgtctttatgtgtgtggacccattggcctttagattattaactatgatttaacttctaagtgcagTATCTCCCAATTGAGGGTTCGGCTGCATTTAATAAGGCAACTGCAGAGTTGTTACTTGGAGCAGACAACCCAGCAATCAAACAGCAAAGA
upper sequence: AT4G31990.4 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: PP1S540_7V6.3 (Physcomitrella patens), 3'ss of exon 4
---------------gtaacttggtttatttcaaattgtgcaagcgattacatcatcagaatatcactaaattatacctcaca-tggatggaacttgcagTATCTTCCAATTGAGGGGTTGGCAGCATTCAACAAGGCTACTGCTGAGTTGCTATTTGGAGCTGGTCATCCTGTTATTAAGGAACAAAGA
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tatttgcatgctttcttaatgctttcattttcttcttacgttagcggttgattcactcagacctctaaaactggttctatgtaattcttgtggtgtgcagTACCTTCCCATTGAGGGACTTGCTGCTTTCAACAAGGCTACTGCAGAGTTGCTATTGGGAGCCGACAACGCCGCCATTAAAGAGAACCGGMapped 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|152038432|gb|AV822767.2|AV822767EST: GCGGAGAATTTGATGTTGGAGAGAGGAGATAACAAAGAG TATCTTCCAATTGAGGGGTTGGCAGCATTCAACAAGGCTACTGCTGAGTTG
genomic: GCGGAGAATTTGATGTTGGAGAGAGGAGATAACAAAGAGgtaacttggt ... gaacttgcagTATCTTCCAATTGAGGGGTTGGCAGCATTCAACAAGGCTACTGCTGAGTTG
EST:
gi|125010217|gb|EL082486.1|EL082486EST: GCGGAGAATTTGATGTTGGAGAGGGGAGATAACAAAGAG TATCTTCCAATTGAGGGGTTGGCAGCAT
genomic: GCGGAGAATTTGATGTTGGAGAGAGGAGATAACAAAGAGgtaacttggt ... gaacttgcagTATCTTCCAATTGAGGGGTTGGCAGCAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgattacatcatcagaatatcactaaattatacctcacatggatggaacttgcagTATCTTCCAATTGAGGGGTTGGCAGCATTCAACAAGGCTACTGCTGAGTTGCTATTTGGAGCTGGTCATCCTGTTATTAAGGAACAAAGA
aatatcactaaattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacttggtttatttcaaattgtgcaagcgattacatcatcagaatatcactaaattatacctcacatggatggaacttgcagTATCTTCCAATTGAGGGGTTGGCAGCATTCAACAAGGCTACTGCTGAGTTGCTATTTGGAGCTGGTCATCCTGTTATTAAGGAACAAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA