Sequence
atgc intronic sequence ATGC exonic sequenceAATGGACATGTAGGGTTCATGTTGTCATGCTATGATGCGGAGCTCAGCTATGATACTCACACGGATACGTTCCAAGCCAGgtataaaatatctaatgtccacatttgacgctaacaaattttcttatttctcatcataagtttacgtttattggggagtttag
Basic information
species | Arabidopsis thaliana |
transcript | AT2G32560.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G32560.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: LOC_Os01g17390.1 (Oryza sativa), 5'ss of exon 2
AATGGACATGTAGGGTTCATGTTGTCATGCTATGATGCGGAGCTCAGCTATGATACTCACACGGATACGTTCCAAGCCAGgtataaaatatctaatg--tccacatttgacgctaacaaattttcttatttctcatcataagtttacgtttattggg-gagtttag--------------------------------------------------------------------------
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CATGGGCATGTTGGATTCATGATGTCATGCTACGATGCAGAGCTCAGCTATGATTTCCACAGTGATACCTTCCGTGCAAGgtactaacttcttactggtttagtgattttagctgtggttgaatgtaaattgtggttatgtcctgatgattttgaggcgaacacatagcagcacaaagattttatatcctctgaagattgtatcttcaagttatctaactggccttaaaaacattgacag
upper sequence: AT2G32560.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GRMZM2G130348_T01 (Zea mays), 5'ss of exon 2
AATGGACATGTAGGGTTCATGTTGTCATGCTATGATGCGGAGCTCAGCTATGATACTCACACGGATACGTTCCAAGCCAGgtat------aaaatatctaatgtccacatttg-acgctaacaaattttcttatttctcatcat--aagtttacgtttattggggagtttag
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CACGGGCATGTTGGGTTCATGATGTCATGCTATGATGCAGCGCTCAGTTACGATTTCCATACCGACACATTCCGTGCAAGgtatgttctgacgatttgtatggtggatacatacaaactgaaaaaacttgtttcttcaaattcttaaaactggtcatcatgtggcag-----
upper sequence: AT2G32560.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA02G44660.2 (Glycine max), 5'ss of exon 2
AATGGACATGTAGGGTTCATGTTGTCATGCTATGATGCGGAGCTCAGCTATGATACTCACACGGATACGTTCCAAGCCAGgtataaaatatctaatgtccacatttgacgctaacaa-attttcttatttctcatcataagtttacgt-ttattggggagtttag-----------------
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AATGGCCATGTTGGATTTATGTTGTCATGCTATGATGCTGAGCTTAGCTATGATCCTCACACTGACACCTTCCAGGCCAGgta--atttaattggacatgattcttggtgaatatattatgttcccatcagtcattgaaagaagaaatattaaaaattaactgagcccattttcattatatc
upper sequence: AT2G32560.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA14G04080.1 (Glycine max), 5'ss of exon 2
AATGGACATGTAGGGTTCATGTTGTCATGCTATGATGCGGAGCTCAGCTATGATACTCACACGGATACGTTCCAAGCCAGgtataaaatatctaatgtccacatttgacgctaacaa--attttcttatttctcatcataagtttacgt-ttattggggagtttag----------------
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AATGGCCATGTTGGATTTATGTTATCATGCTATGATGCTGAGCTTAGCTATGATCCTCACAATGACACCTTCCAGGCCAGgta--atttaattggacatgattcttggtgattatatgtatgttcccatcagtcattgaaagaagaaatattaaaaattaactcaacccattttcattatat
upper sequence: AT2G32560.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv06s0009g02700.t01 (Vitis vinifera), 5'ss of exon 2
AATGGACATGTAGGGTTCATGTTGTCATGCTATGATGCGGAGCTCAGCTATGATACTCACACGGATACGTTCCAAGCCAGgtata-aaatatctaatgtccacatttgacgctaa-caaattttcttatt-tctcat-cataagtt-----------tacgtttattggggagtttag-------------------------
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AGTGGCCATGTTGGCTTTATGTTATCATGCTATGATGCAGAGCTTAGCTATGATTCCCACACTGATACCTTCCAGGCCAGgtaaatggagaaatgaccttcaagtagcccactcttcaaatagtattactctttcattcatgaattagataagaaattaaggatggtgggtggcttaaacctgagatgatttctgtattgcag
upper sequence: AT2G32560.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S194_4V6.2 (Physcomitrella patens), 5'ss of exon 3
AATGGACATGTAGGGTTCATGTTGTCATGCTATGATGCGGAGCTCAGCTATGATACTCACACGGATACGTTCCAAGCCAGgtataaaatatctaatgtccacatttgacgctaa-caaattttcttatttctcatcataagtttacgttta----ttggggagtttag--------------
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AATGGACATGTAGGCTTCATGCTGTCATGTTATGATGCGGAACTGAACTACGATCGTCGAACGGACACATTCAAAGCAAGgtactgtctgcattttggactcttttcttgcaaagtgagatcgtctactccccacattttgtcgacatgcgaaatttctaacgtatgattcttctatcgcagMapped 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|125011658|gb|EL083927.1|EL083927EST: TATGATGCGGAGCTCAGCTATGATACTCACACGGATACGTTCCAAGCCAG GTATCCACCACA
genomic: TATGATGCGGAGCTCAGCTATGATACTCACACGGATACGTTCCAAGCCAGgtataaaata ... gggagtttagGTATCCACCACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AATGGACATGTAGGGTTCATGTTGTCATGCTATGATGCGGAGCTCAGCTATGATACTCACACGGATACGTTCCAAGCCAGgtataaaatatctaatgtccacatttgacgctaacaaattttcttatttctcatcataagtttacgtttattggggagtttag
- - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - TCAGCT