Sequence
atgc intronic sequence ATGC exonic sequencegtatatattatcatgatatcctatcagccaaattagtcatctttctgacaactgtatgcattctttaagtttgacaattgattatatggttcagGATGCTGCTGCTTGGCTAGAATACTTTGAGTCCAAGGCTTTTGAACAACAAGAAGCTGCGCGAAATGGTACTCCTAAGCCAGACGCGTCTATAGCCAGCA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G01320.2 |
intron # | 21 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G01320.2 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: GLYMA07G06160.1 (Glycine max), 3'ss of exon 21
----gta-tatattatcatgatatcctatcagccaaattagtcatctttc---tgacaactgtatgcattctttaagtttgacaattgattatatggttcagGATGCTGCTGCTTGGCTAGAATACTTTGAGTCCAAGGCTTTTGAACAACAAGAAGCTGCGCGAAATGGTACTCCTAAGCCAGACGCGTCTATAGCCAGCA
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attggtgctccagtctcaatttgtctttttctttaaaaaaaatgaatgaggaattataactgtttgcataatctatagttttttttttataatttga--cagGATGCTGCGGCTTGGCTTGAGTATTTTGAGTCCAAGGCTTTTGAACAGCAAGAAGCTGCTCGAAATGGTACTCGAAAACCTGATGCATCAATAGCTAGCA
upper sequence: AT1G01320.2 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: GLYMA16G02770.1 (Glycine max), 3'ss of exon 21
----gtatatattatcatgatatcctatcagccaaattagtcatctttctgacaactgtatgcattctttaagt-ttgacaattgattatatggtt--cagGATGCTGCTGCTTGGCTAGAATACTTTGAGTCCAAGGCTTTTGAACAACAAGAAGCTGCGCGAAATGGTACTCCTAAGCCAGACGCGTCTATAGCCAGCA
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ctcaatttgtctttttcttaaaaaaatgatgaggaattataactgtttgcataatctata-gttttttttatttatttacttttttttataaatttggcagGATGCTGCGGCTTGGCTTGAGTATTTTGAATCCAAGGCTTTTGAACAGCAAGAAGCTGCTCGAAATGGTACTCGAAAACCTGATGCATCAATAGCCAGCA
upper sequence: AT1G01320.2 (Arabidopsis thaliana), 3'ss of exon 21
lower sequence: Vv15s0046g00740.t01 (Vitis vinifera), 3'ss of exon 21
--------------gtatatattatcatgatatcctatcagccaaattagtcatctttctgacaactgtatgcattctttaagtttgacaattgattatatggttcagGATGCTGCTGCTTGGCTAGAATACTTTGAGTCCAAGGCTTTTGAACAACAAGAAGCTGCGCGAAATGGTACTCCTAAGCCAGACGCGTCTATAGCCAGCA
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atcatctttttgaagcacgtgtgatgattctttttaatt--tcattctattcaagttt-tgtcatttgaaagtggt-tctaagttctgtaatgga----atgctgtagGATGCTGCTGCTTGGCTCGAGTACTTTGAGTCAAAGGCTTTTGAACAGCAAGAAGCTGCAAGAAATGGGACTCGAAAACCTGATGCATCCATAGCCAGCAMapped 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|116396583|gb|EG439175.1|EG439175EST: CCTTAAGAATCCTTCGAGCAAAGCTGGGGCCAGATGATTTACGTACTCAG GATGCTGCTGCCTGGCTAGAATACTTTGAGTCCAAGGCTTTTGAACAACAA
genomic: CCTTAAGAATCCTTCGAGCAAAGCTGGGGCCAGATGATTTACGTACTCAGgtatatatta ... tatggttcagGATGCTGCTGCTTGGCTAGAATACTTTGAGTCCAAGGCTTTTGAACAACAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttctgacaactgtatgcattctttaagtttgacaattgattatatggttcagGATGCTGCTGCTTGGCTAGAATACTTTGAGTCCAAGGCTTTTGAACAACAAGAAGCTGCGCGAAATGGTACTCCTAAGCCAGACGCGTCTATAGCCAGCA
acaattgattatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatattatcatgatatcctatcagccaaattagtcatctttctgacaactgtatgcattctttaagtttgacaattgattatatggttcagGATGCTGCTGCTTGGCTAGAATACTTTGAGTCCAAGGCTTTTGAACAACAAGAAGCTGCGCGAAATGGTACTCCTAAGCCAGACGCGTCTATAGCCAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC