Sequence
atgc intronic sequence ATGC exonic sequenceGTATGGACAACAGGAACTATGGGAGAACTAAGCCCGgtaagtacagaacagtctctagtagcttgtgaataaaacatcctcaatcgttctccacctgaatgtataacattcactaattaaaactttgaataaatgg...
Basic information
species | Arabidopsis thaliana |
transcript | AT3G05190.1 |
intron # | 18 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G05190.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA10G29770.1 (Glycine max), 5'ss of exon 19
GTATGGACAACAGGAACTATGGGAGAACTAAGCCCGgtaagtacagaacagtctctagtagcttgtgaataaaacatcctcaatcgttctccacctgaatgtataacattcactaattaaaactttgaataaatgg--------
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ATATGGACAACAGGAACAATGGGAGAACTAAGCCCAgtaagtgccttgta--ccatgttaattttgaaattttgg---ctgaattatgtt--atct-aacatgatagattactccatttggattttctgttcctcctacttttc
upper sequence: AT3G05190.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA19G42530.1 (Glycine max), 5'ss of exon 18
GTATGGACAACAGGAACTATGGGAGAACTAAGCCCGgtaagtacagaacagtctctagtagcttgtgaataaa-acatcctcaatcgttctccacctgaatgtataacattcactaattaaaactttgaataaatgg-
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GTATGGACGACTGGAACAATGGGAGAACTAAGCCCGgtaagtgccttattataccttatcaattgaatcttattatatattgtgtgaatgtgctgctgggtatgcatctagaat--attacctgtttggctgattcct
upper sequence: AT3G05190.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA03G40000.1 (Glycine max), 5'ss of exon 18
GTATGGACAACAGGAACTATGGGAGAACTAAGCCCGgtaagtacagaacagtctctagtagcttgtgaataaa-acatcctcaatcgttctccacctgaatgtataacattcactaattaaaactttgaataaatgg
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GTATGGACGACTGGAACAATGGGAGAACTAAGCCCCgtaagtgccttattataccttatcaattgaatcttattatatattgtgtgaatgtgctgccgggtatgcatc-tagaatacttcacctgttgggctgattc
upper sequence: AT3G05190.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: GLYMA03G40000.2 (Glycine max), 5'ss of exon 18
GTATGGACAACAGGAACTATGGGAGAACTAAGCCCGgtaagtacagaacagt-ctctagtagcttgtgaataaaacatcctcaatcgttctccacctgaatgtataacattcactaattaaaactttgaataaatgg
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GTATGGACGACTGGAACAATGGGAGAACTAAgccccgtaagtgccttattataccttatcaattgaatcttattatatattgtgtgaatgtgctgccgggtatgcatc-tagaatacttcacctgttgggct-----
upper sequence: AT3G05190.1 (Arabidopsis thaliana), 5'ss of exon 18
lower sequence: Vv14s0128g00100.t01 (Vitis vinifera), 5'ss of exon 28
GTATGGACAACAGGAACTATGGGAGAACTAAGCCCGgtaagtacagaacagtctctagtagcttgtgaataaaacatcct-caatcgttctccacctgaatgtataacattcactaattaaa-actttgaataaatgg
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GTATGGACAACTGGAACCATGGGAGAACTCAGCCCAgtaagttccttttattgtat-gtaatgaatctgaaaagtatggtgtagtaggggcgcatctcag-gcatttgttgttttggttaaatattttggaaatactcMapped 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|163975450|gb|ES025174.1|ES025174EST: GTATGGACAACAGGAACTATGGGAGAACTAAGCCCG GTTGTGAAAATCGATGGG
genomic: GTATGGACAACAGGAACTATGGGAGAACTAAGCCCGgtaagtacag ... ttggttacagGTTGTGAAAATCGATGGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTATGGACAACAGGAACTATGGGAGAACTAAGCCCGgtaagtacagaacagtctctagtagcttgtgaataaaacatcctcaatcgttctccacctgaatgtataacattcactaattaaaactttgaataaatgg
- - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acagaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cgttctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aattaaaa