Sequence
atgc intronic sequence ATGC exonic sequenceGAGAAGGCTCCTTATGTGGCTAAGGCTGACAAGCGCAAGGTTGAGTATGAGAAGAACATGAAAGCCTACAACAAGAAATTGGTAATTgtttatttgcatatagaaggctatgttatgtttatattaaccacgttattgagttgtctactctctttatactagtcagtagtcacactattcaaggctt...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G20696.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G20696.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA06G01970.4 (Glycine max), 5'ss of exon 5
GAGAAGGCTCCTTATGTGGCTAAGGCTGACAAGCGCAAGGTTGAGTATGAGAAGAACATGAAAGCCTACAACAAGAAA----TTGGTAATTgtttatttgcatat-----------agaaggctatgttatgt-ttatattaaccacgttattgagttgtctactctctttatactagtcagtagtca--cactattcaaggctt-----------------
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GAAAAAGCACCTTATGTGGCAAAGTCTGAGAAAAGGAAAGTGGAGTACGAGAAGAACATGAGAGCCTATAACAAGAAACAGgttggttcatctttggtgacatgttattatttacagaaagaatctgtaatttattgttctcatcagcccaaggaaa-gttgaatatgtgtttattggtctgtaatgagctgttctcataggcttttgtttcatgttgtcag
upper sequence: AT1G20696.2 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv18s0122g01190.t01 (Vitis vinifera), 5'ss of exon 6
GAGAAGGCTCCTTATGTGGCTAAGGCTGACAAGCGCAAGGTTGAGTATGAGAAGAACATGAAAGCCTACAACAAGAAATTGGTAATTgtttatttgcatatagaaggctatgttatgtttatattaaccacgttattgagttgtctactctcttta-tactagtcagtagtcacactattcaaggctt
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GAGAAGGCTCCCTATGTAGCGAAAGCAGAAAAGCGGAAAGTAGAATACGAGAAGAACATGAAAGCCTATAACAAAAAACAGgtattt--tactttaaatgtatgctcctagtattcaagtaaaatggttcttcatccaaattgtttctcttgttcagtataaaattatatctgattcattcgt-----Mapped 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|301502423|gb|HO207963.1|HO207963EST: GTTGAGTATGAGAAGAACATGAAAGCCTACAACAAGAAATTGGAGGAAG- GCCCTAAGGAAGATGAGGAATCTGACAAGTCAGTTTCAGAGGTTAACGAT
genomic: GTTGAGTATGAGAAGAACATGAAAGCCTACAACAAGAAATTGGT--AATTgtttatttgc ... caggaggaagGCCCTAAGGAAGATGAGGAATCTGACAAGTCAGTTTCAGAGGTTAACGAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGAAGGCTCCTTATGTGGCTAAGGCTGACAAGCGCAAGGTTGAGTATGAGAAGAACATGAAAGCCTACAACAAGAAATTGGTAATTgtttatttgcatatagaaggctatgttatgtttatattaaccacgttattgagttgtctactctctttatactagtcagtagtcacactattcaaggctt
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctactctc