Sequence
atgc intronic sequence ATGC exonic sequencegtacgtagattagtatatatacccttgttgcagatttctaatgttaatgttaatgctaatgttgatgatgtgagagtgcagAATGTGAAGGCGGTGTTTGACGCAGCCATCCGAGTGGTGTTGCAACCGCCAAAGCAGAAGAAGAAGAAGAGCAAAGCGCAGAAGGCATGCTCCATTCTAT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G51300.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G51300.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA02G05160.1 (Glycine max), 3'ss of exon 6
gtacgtagattagtatatatacc----cttgttgcagatttctaatgttaat-gttaatgctaatgttgatgatg--tgagagtgcagAATGTGAAGGCGGTGTTTGACGCAGCCATCCGAGTGGTGTTGCAACCGCCAAAGCAGAAGAAGAAGAAGAGCAAAGCGCAGAAGGCATGCTCCATTCTAT
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gtatataattaaatgtatttcctttttcttttcacacaatggttaagttaattggtagtcataaatttatatttgacctttattgcagAATGTGAAGGCAGTATTTGATGCAGCCATAAGAGTTGTCCTTCAACCACCAAAGCAAAAGAAAAAGAAGAGTAAAGCACAAAAGGCTTGTTCAATATTGT
upper sequence: AT3G51300.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GLYMA11G08380.1 (Glycine max), 3'ss of exon 7
gtacgtagattagtatatataccct--tgttgcagatttctaatgttaatgttaatgctaatgttgatgatgtgaga----gtgcagAATGTGAAGGCGGTGTTTGACGCAGCCATCCGAGTGGTGTTGCAACCGCCAAAGCAGAAGAAGAAGAAGAGCAAAGCGCAGAAGGCATGCTCCATTCTAT
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gtacatggttgaatgtatttcttttatttttttaaaatcacgatggttaattcaatgtttttaaaaaaaaattggtatttattacagAACGTGAAGGCAGTCTTTGATGCAGCCATAAGAGTTGTCCTTCAACCACCTAAGCAGAAGAAAAAGAAGGGTAAAGCACAAAAGGCATGCTCGATATTGT
upper sequence: AT3G51300.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: EFJ11645 (Selaginella moellendorffii), 3'ss of exon 6
gtacgtagattagtatatatacccttgttgcagatttctaatgttaatgttaatgctaatgttgatgatgtgagagtgcagAATGTGAAGGCGGTGTTTGACGCAGCCATCCGAGTGGTGTTGCAACCGCCAAAGCAGAAGAAGAAGAAGAGCAAAGCGCAGAAGGCATGCTCCATTCTAT---
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-------gtttggctcg---gccctcgtttgaggcacatctttctaa----aacacccttcgttttggtgc-----cccagAATGTGAAAGCTGTGTTCGACGCGGCAATCAAGGTGGTGTTGCAACCTCCAAAGCAGAAGAAACGAAAGAAGAA---GCAACGGGGCTGTACAGTGCTGTGAC
upper sequence: AT3G51300.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: EFJ09765 (Selaginella moellendorffii), 3'ss of exon 6
gtacgtagattagtatatatacccttgttgcagatttctaatgttaatgttaatgctaatgttgatgatgtgagagtgcagAATGTGAAGGCGGTGTTTGACGCAGCCATCCGAGTGGTGTTGCAACCGCCAAAGCAGAAGAAGAAGAAGAGCAAAGCGCAGAAGGCATGCTCCATTCTAT--
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----------------gtttggc-tcggccctggtttgaggcacaactttctaaaacaccctt--cgttttggtgccccagAATGTGAAAGCTGTGTTCGACGCGGCAATCAAGGTGGTGTTGCAACCTCCAAAGCAGAAGAAACGAAAGAAGAA---GCAACGGGGATGTACAGTGCTGTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgcagatttctaatgttaatgttaatgctaatgttgatgatgtgagagtgcagAATGTGAAGGCGGTGTTTGACGCAGCCATCCGAGTGGTGTTGCAACCGCCAAAGCAGAAGAAGAAGAAGAGCAAAGCGCAGAAGGCATGCTCCATTCTAT
atttctaatgttaatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgtagattagtatatatacccttgttgcagatttctaatgttaatgttaatgctaatgttgatgatgtgagagtgcagAATGTGAAGGCGGTGTTTGACGCAGCCATCCGAGTGGTGTTGCAACCGCCAAAGCAGAAGAAGAAGAAGAGCAAAGCGCAGAAGGCATGCTCCATTCTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG