Sequence
atgc intronic sequence ATGC exonic sequencegtgagataatgttattcgccttattttgtatccaaatgttacctttttactttcttatgtggaacttctttttggcagACGCTTGTGACTGGTTTTGCTAGAATTTATGGTCAGACGGTGGGTATTATCGGGAACAATGGCATACTGTTCAATGAATCTGCACTAAAAGGAGCTCACT
Basic information
species | Arabidopsis thaliana |
transcript | AT4G34030.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G34030.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA02G14860.1 (Glycine max), 3'ss of exon 4
-------------gtgagata-atgttattcgccttattttgtatccaaatgttacctttttactttcttatgtggaacttcttt--------ttggcagACGCTTGTGACTGGTTTTGCTAGAATTTATGGTCAGACGGTGGGTATTATCGGGAACAATGGCATACTGTTCAATGAATCTGCACTAAAAGGAGCTCACT
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aaaatttctacaactcatctatataccagtagcctggaagaaaagcgcagttgcaattccctatctgtttattataaccttttttgaaatctttttgcagACACTTGTGACAGGATTTGCTAGAATTTTTGGACAGCCTGTTGGAATTATTGGAAACAATGGGATTTTATTCAATGAATCTGCACTGAAAGGGGCCCATT
upper sequence: AT4G34030.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA07G33620.1 (Glycine max), 3'ss of exon 4
------------------gtgag-ataatgtta--ttcgccttattttgta--tccaaatgttacctttttactttcttatgtggaacttctttttggcagACGCTTGTGACTGGTTTTGCTAGAATTTATGGTCAGACGGTGGGTATTATCGGGAACAATGGCATACTGTTCAATGAATCTGCACTAAAAGGAGCTCACT
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ataaaatttctacaactcatcagtatactggtagcctggaagaaaagcgcagttgcaattcctatctgtttattataacctttttgaaatctttttg-cagACACTTGTGACAGGATTTGCTAGAATTTTCGGACAGCCTGTTGGAATTATTGGAAACAATGGGATTTTATTCAATGAATCTGCACTGAAAGGGGCCCATT
upper sequence: AT4G34030.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: Vv03s0063g00290.t01 (Vitis vinifera), 3'ss of exon 5
gtgagataatgttattcgccttattttgtatccaaatgttaccttttt------actttcttatgtggaacttctttttg-------gcagACGCTTGTGACTGGTTTTGCTAGAATTTATGGTCAGACGGTGGGTATTATCGGGAACAATGGCATACTGTTCAATGAATCTGCACTAAAAGGAGCTCACT
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gtgagggcattttaatatcttaaaactctaagctaattgcatgttctttttggcaatttcaaatttggtaattctagttgtttctatgcagACTCTTGTAACAGGTTTTGCTAGAATTTTTGGACAACCTGTGGGCATAATCGGAAACAATGGGATATTATTTAATGAATCTGCTCTAAAAGGGGCCCATTMapped 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|125326092|gb|EL340172.1|EL340172EST: GGATTGTTGATGGAAGTGAATTTGACGAGTTCAAGAAACAATACGGCACT ACGCTTGTGACTGGTTTTGCTAGAATTTATGGTCAGACGGTGGGTATTATC
genomic: GGATTGTTGATGGAAGTGAATTTGACGAGTTCAAGAAACAATACGGCACTgtgagataat ... tttttggcagACGCTTGTGACTGGTTTTGCTAGAATTTATGGTCAGACGGTGGGTATTATC
EST:
gi|86059294|gb|DR355051.1|DR355051EST: GGATTGTTGATGGAAGTGAATTTGACGAGTTCAAGAAACAATACGGCACT ACGCTTGTGACTGGTTTTGCTA
genomic: GGATTGTTGATGGAAGTGAATTTGACGAGTTCAAGAAACAATACGGCACTgtgagataat ... tttttggcagACGCTTGTGACTGGTTTTGCTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgtatccaaatgttacctttttactttcttatgtggaacttctttttggcagACGCTTGTGACTGGTTTTGCTAGAATTTATGGTCAGACGGTGGGTATTATCGGGAACAATGGCATACTGTTCAATGAATCTGCACTAAAAGGAGCTCACT
cttcttttt CT-rich tract
tttttactttcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagataatgttattcgccttattttgtatccaaatgttacctttttactttcttatgtggaacttctttttggcagACGCTTGTGACTGGTTTTGCTAGAATTTATGGTCAGACGGTGGGTATTATCGGGAACAATGGCATACTGTTCAATGAATCTGCACTAAAAGGAGCTCACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA