Sequence
atgc intronic sequence ATGC exonic sequence...ctcttatgttcttattcctcctggtttatctttggttagctgggaagggtgagataccctttctatataaatccattttttcccatctcggcgtttccagGTTGCACGAGCGTCTCCAAGAGTGTAACGGTGATGAGGTCCTCAAAGCAGAAGCTGGTGCTAAAGTTCAAAAGTTTACTGAATGGGCACTCAAATGTATA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G44090.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G44090.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA17G00260.1 (Glycine max), 3'ss of exon 1
ctcttatgttcttattcctcctggtttatct-ttggttagctgggaagggtgagataccctttctatataaatccattttttcccatctcggcgtttccagGTTGCACGAGCGTCTCCAAGAGTGTAACGGTGATGAGGTCCTCAAAGCAGAAGCTGGTGCTAAAGTTCAAAAGTTTACTGAATGGGCACTCAAATGTATA
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-aattatgttgaaactggaaacaggttatttactgtttttttgctaaaatttctgcagctatagtttttgcagctcaaatatgaactctgctttttgctagGTTGCATGAGCGTCTCCAGGAATGCAATGGAGATGAAGTATTGAAGGCAGAAGCTGGTGCTAAGGTTCAAAAGTTTACTGAATGGGCTCTGAAATGTATA
upper sequence: AT2G44090.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA07G40370.1 (Glycine max), 3'ss of exon 2
ctcttatgttcttattcctcctggtttatct-ttggttagctgggaagggtgagataccctttctatataaatccattttttcccatctcggcgtttccagGTTGCACGAGCGTCTCCAAGAGTGTAACGGTGATGAGGTCCTCAAAGCAGAAGCTGGTGCTAAAGTTCAAAAGTTTACTGAATGGGCACTCAAATGTATA
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-aattatgttgaaactggaaacagattatgtactgcttttttgctaaaatttctgcagctatagtatttgcagctcaaatatgaactctgctttttgctagGTTGCATGAACGTCTCCAGGAATGCAATGGAGATGAAGTATTGAAGGCAGAAGCTGGTGCTAAGGTTCAAAAGTTTACTGAATGGGCTCTGAAATGTATA
upper sequence: AT2G44090.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv05s0094g01540.t01 (Vitis vinifera), 3'ss of exon 4
--ctcttatgttcttattcctcctggtttatctttggttagctgggaagggtgagataccctttctatataaatccattttttcccatctcggcgtttccagGTTGCACGAGCGTCTCCAAGAGTGTAACGGTGATGAGGTCCTCAAAGCAGAAGCTGGTGCTAAAGTTCAAAAGTTTACTGAATGGGCACTCAAATGTATA
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gagacaggagttattgataccatgtagttgctgactgtta--ttagatgtttgttgcatgctatccatgtgccaatttgtctcaccattgcttgcttatcagGTTGCATGAGCGTCTTCAGGAATGCAATGGGGATGAAGTCTTGAAGGCAGAAGCAGGTGCCAAGGTCCAAAAGTTTACTGAATGGGCTCTAAAGTGTATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agggtgagataccctttctatataaatccattttttcccatctcggcgtttccagGTTGCACGAGCGTCTCCAAGAGTGTAACGGTGATGAGGTCCTCAAAGCAGAAGCTGGTGCTAAAGTTCAAAAGTTTACTGAATGGGCACTCAAATGTATA
cgtttcc CT-rich tract
tttctatataaatcca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcttatgttcttattcctcctggtttatctttggttagctgggaagggtgagataccctttctatataaatccattttttcccatctcggcgtttccagGTTGCACGAGCGTCTCCAAGAGTGTAACGGTGATGAGGTCCTCAAAGCAGAAGCTGGTGCTAAAGTTCAAAAGTTTACTGAATGGGCACTCAAATGTATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG