Sequence
atgc intronic sequence ATGC exonic sequencegtaattcacattattgaatagatctaaaactcttttattttctcgttggaatatcactagggacaatcatttcaacactttttttattttaattagttgtccataatcttcttacggccagttccatatttttttttttttaagtggttcatgacctttattgggttgtgcttattgttcgttagGAATCTTTTGGCTTCGGAGATTCCTGGCGAGAACTCTTTGATGTTGTGATTGCTAAAGCAAATAAACCAGAATTTTACACATCTGAGCACCCTTTCCG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G23890.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G23890.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G040945_T01 (Zea mays), 3'ss of exon 7
gtaattcacattattgaatagatctaaaactcttttattttctcgttggaatatcactagggacaatcatttcaacactttttttattttaattagttgtccataatcttcttacggccagttccatatttttttttttttaagtggttcatgacctttattgggttgtgcttattgttcgttagGAATCTTTTGGCTTCGGAGATTCCTGGCGAGAACTCTTTGATGTTGTGATTGCTAAAGCAAATAAACCAGAATTTTACACATCTGAGCACCCTTTCCG
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-----------------------------------------------------------------------------------ttattccaaataga-atgtagcatgtcagcgtaatatgaaaaatatttttgcttactcaaatattctctg-cattgactattttcacaatttggttgggcagGACCAACATTTTGATGGAAATTCCTGGAGGGAACTGTTTGATGTTGTGATTGCGCAGGCAAATAAACCAACTTTCTATAACTCAGATCACCCATTCAG
upper sequence: AT2G23890.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA17G07760.1 (Glycine max), 3'ss of exon 8
gtaattcacattattgaatagatctaaaactcttttattttctcgttggaatatcactagggacaatcatttcaacactttttttattttaattagttgtccataatcttcttacggccagttccatatttttttttttttaagtg-gttcatgacctttattgggttgtgctt-attgttcgttagGAATCTTTTGGCTTCGGAGATTCCTGGCGAGAACTCTTTGATGTTGTGATTGCTAAAGCAAATAAACCAGAATTTTACACATCTGAGCACCCTTTCCG
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--------------------------------------------------------------------------------------ccttacttagttttaaatgtaatttttgtggttcatgat-tgttttgcacttttcatttctggacataatttccttgagtttattcttgaatgttgattagGATTCTCTGGATTGTAGAGACTCTTGGACGGAACTGTTTGATGTTGTGATTGCTAAGGCCAATAAACCACAGTTTTATACATCTGAGCATCCATTCCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttttttttaagtggttcatgacctttattgggttgtgcttattgttcgttagGAATCTTTTGGCTTCGGAGATTCCTGGCGAGAACTCTTTGATGTTGTGATTGCTAAAGCAAATAAACCAGAATTTTACACATCTGAGCACCCTTTCCG
ttttttaagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattcacattattgaatagatctaaaactcttttattttctcgttggaatatcactagggacaatcatttcaacactttttttattttaattagttgtccataatcttcttacggccagttccatatttttttttttttaagtggttcatgacctttattgggttgtgcttattgttcgttagGAATCTTTTGGCTTCGGAGATTCCTGGCGAGAACTCTTTGATGTTGTGATTGCTAAAGCAAATAAACCAGAATTTTACACATCTGAGCACCCTTTCCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA