Sequence
atgc intronic sequence ATGC exonic sequence...tagatagaagattgattgcccttagtgttttagtttactttttgtgctttatcttgttcatgaagtggtatctcttagtaagatttctttattatgatagGTGGGTGGGTTGGTTTTTTCTCGTACGACACTGTTCGTTATGTTGAGAAGAGGAAATTGCCATTTTCAAAGGCCCCTGAGGATGATAGGAACTTGCCAGA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G05730.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G05730.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA18G03260.1 (Glycine max), 3'ss of exon 2
------tagatagaagattgattgcccttagtgttttagtttactttttgtgctttatcttgtt-catgaagtggtatctcttagtaagatttctttattatgatagGTGGGTGGGTTGGTTTTTTCTCGTACGACACTGTTCGTTATGTTGAGAAGAGGAAATTGCCATTTTCAAAGGCCCCTGAGGATGATAGGAACTTGCCAGA
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cgtgctcatgtgaaagacagagagc----agtattcttgacagctttct---ctaaatctaattatattacctacagtacattaacttgtttcagtttctcttttagGTGGTTGGGCAGGTTATTTCTCATATGACACTGTTCGTTATGTGGAAAAGAAAAAGCTACCATTTTCAAATGCTCCAGAGGATGACAGGAACCTTGCTGA
upper sequence: AT5G05730.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA18G03270.1 (Glycine max), 3'ss of exon 2
-tagatagaagattgattgccctta-gtgttttagtttactttttgtgctttatcttgttcatgaagtggtatctc-ttagtaagatttctttattatgatagGTGGGTGGGTTGGTTTTTTCTCGTACGACACTGTTCGTTATGTTGAGAAGAGGAAATTGCCATTTTCAAAGGCCCCTGAGGATGATAGGAACTTGCCAGA
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atgcttgtgtgggtgttcacttgcatgtgtgtgaa---agacagagggctgtattcttgacgtgttttttcatctaattaacttgtttaagctgctcttctagGTGGTTGGGCAGGTTATTTCTCATATGACACTGTTCGTTATGTGGAAAAGAAAAAGCTACCATTTTCAAACGCTCCAGAGGATGACAGGAACCTTGCTGA
upper sequence: AT5G05730.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv13s0067g00400.t01 (Vitis vinifera), 3'ss of exon 3
-tagatagaagattgattgcccttagtgttttagtttactttttgtgctttatcttgttcatgaagtggtatctcttagtaa--gatttctttattatgatagGTGGGTGGGTTGGTTTTTTCTCGTACGACACTGTTCGTTATGTTGAGAAGAGGAAATTGCCATTTTCAAAGGCCCCTGAGGATGATAGGAACTTGCCAGA
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agagatatgtgggttatgttccttattgtattc-ttgatcaatactggttcctttaaaatatgaaaatccatg-cttagtaattaactaccgtttta-aatagGTGGATGGGTTGGTTTTTTCTCATATGATACGGTTTGTTATGTGGAGAAGAAAAAGCTGCCATTCTCAAAAGCACAAGATGATGACAGAAATCTCGCAGAMapped 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|116443895|gb|EG486487.1|EG486487EST: ATGGAACCCTGATCCTCAACTAGTTCAGGACCTTCCAGATGCGTTTTGTG GTGGGTGGGTTGGTTTTTTCTCGTACGACACTGTTCGTTATGTTGAGAAGA
genomic: ATGGAACCCTGATCCTCAACTAGTTCAGGACCTTCCAGATGCGTTTTGTGgtaagagatt ... attatgatagGTGGGTGGGTTGGTTTTTTCTCGTACGACACTGTTCGTTATGTTGAGAAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctttatcttgttcatgaagtggtatctcttagtaagatttctttattatgatagGTGGGTGGGTTGGTTTTTTCTCGTACGACACTGTTCGTTATGTTGAGAAGAGGAAATTGCCATTTTCAAAGGCCCCTGAGGATGATAGGAACTTGCCAGA
tttctttatt CT-rich tract
ttagtaagatttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagatagaagattgattgcccttagtgttttagtttactttttgtgctttatcttgttcatgaagtggtatctcttagtaagatttctttattatgatagGTGGGTGGGTTGGTTTTTTCTCGTACGACACTGTTCGTTATGTTGAGAAGAGGAAATTGCCATTTTCAAAGGCCCCTGAGGATGATAGGAACTTGCCAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG