Sequence
atgc intronic sequence ATGC exonic sequencegtaagctcactcagattatgtggtgttagtcatgatgttgacatttttccttctttgttctcatcaaaaatttgtaattctaatttgtgaggtaattctcttacttatagATATCAGATGCTATACGTGATGGAGCTGAAGGTTTTTTCAGAACGCAGTATAGCACTATATCCAAGATGGCCATTTTGCTAGCTTTTGTGATTCTTTGCA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G78920.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G78920.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA07G00350.1 (Glycine max), 3'ss of exon 3
gtaag-ctcactcagattatgtggtgttagtcatgatgttgacatttttccttctttgttctcatcaaaaatttgtaattctaatttgtgaggtaattctcttactta-tagATATCAGATGCTATACGTGATGGAGCTGAAGGTTTTTTCAGAACGCAGTATAGCACTATATCCAAGATGGCCATTTTGCTAGCTTTTGTGATTCTTTGCA
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gtaaatctctttcctataatctcaactcttttatcatg---actgcttttcgatttcatcaccatcaacc-cttgttttcttg--tcctgagcttagcatgttgctttctagATATCAGATGCTATACGAGACGGAGCTGAAGGATTTTTCAGGACCCAGTATGGGAGTATATCTAAGATGGCCATGTTGCTTGCCCTTGTTATTCTTTGCA
upper sequence: AT1G78920.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G24120.2 (Glycine max), 3'ss of exon 3
gtaagctcactcagattatgtggtgttagtcatgatgttgacatttttccttctttgttctcatcaaaaatttgtaattctaatttgtgaggtaattctcttactta-tagATATCAGATGCTATACGTGATGGAGCTGAAGGTTTTTTCAGAACGCAGTATAGCACTATATCCAAGATGGCCATTTTGCTAGCTTTTGTGATTCTTTGCA
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------------------------gtaaatctctttcctgtaatctcaactcttttatctcacatgaatccttgttatctcg--tcctgagcttatcatattgctttctagATATCAGACGCTATACGAGACGGAGCTGAAGGATTTTTCAGGACCCAGTATGGGAGTATATCTAAGATGGCCATGTTGCTTGCACTTGTCATTCTTTGCA
upper sequence: AT1G78920.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv09s0054g00700.t01 (Vitis vinifera), 3'ss of exon 3
gtaagctcactcagattatgtggtgttagtcatgatgttgacatttttccttctttgttctcatcaaaaatttgtaattctaatttgtgaggtaattctcttactta-tagATATCAGATGCTATACGTGATGGAGCTGAAGGTTTTTTCAGAACGCAGTATAGCACTATATCCAAGATGGCCATTTTGCTAGCTTTTGTGATTCTTTGCA
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----attatctgagaatgaccaaacttaagaatgaagta-----ttctcatggttataattcagaaattctttgtgaacttg--tcctgagcttattattccactttctagATATCAGATGCGATACGTGATGGAGCAGAAGGTTTCTTCAGGACCCAATATGGGACTATTTCCAAGATGGCAATGTTACTAGCTCTTGTGATCCTTAGCAMapped 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|116443901|gb|EG486493.1|EG486493EST: TAACCAAGTGGGTTTTAGCGAAAGATGAAGGACCTCCAGAGATGGTTGAG ATATCAGATGCTATACGTGATGGAGCTGAAGGTTTTTTCAGAACGCAGTAT
genomic: TAACCAAGTGGGTTTTAGCGAAAGATGAAGGACCTCCAGAGATGGTTGAGgtaagctcac ... ttacttatagATATCAGATGCTATACGTGATGGAGCTGAAGGTTTTTTCAGAACGCAGTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttctcatcaaaaatttgtaattctaatttgtgaggtaattctcttacttatagATATCAGATGCTATACGTGATGGAGCTGAAGGTTTTTTCAGAACGCAGTATAGCACTATATCCAAGATGGCCATTTTGCTAGCTTTTGTGATTCTTTGCA
ttctcttactt CT-rich tract
atcaaaaatttgtaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctcactcagattatgtggtgttagtcatgatgttgacatttttccttctttgttctcatcaaaaatttgtaattctaatttgtgaggtaattctcttacttatagATATCAGATGCTATACGTGATGGAGCTGAAGGTTTTTTCAGAACGCAGTATAGCACTATATCCAAGATGGCCATTTTGCTAGCTTTTGTGATTCTTTGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG