Sequence
atgc intronic sequence ATGC exonic sequencegtatttccagttatttccccggaatttttaggcagtgagcaatgaaatggaaagaaacggttgtcagtagaagaaacagtgggaatagattgttagacaaactaaacaattcctttttttattgtgttctgctatcttaaagGTTGGATTTACGAACGAAGGAAAAATATTGGCGTTGGACCTTGAAATTTACAACAATGGTGGCAACTCTTTGGATCTCTCCCTTTCTGTTCTTGAACGTG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G34890.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G34890.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ27160 (Selaginella moellendorffii), 3'ss of exon 7
gtatttccagttatttccccggaatttttaggcagtgagcaatgaaatggaaagaaacggttgtcagtagaagaaacagtgggaatagattgttagacaaactaaacaattcctttttttattgtgttctgctatcttaaagGTTGGATTTACGAACGAAGGAAAAATATTGGCGTTGGACCTTGAAATTTACAACAATGGTGGCAACTCTTTGGATCTCTCCCTTTCTGTTCTTGAACGTG
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---------------------------------------------------------------------------------gtaccttgttatttctccatgtgtgcgttgctttgattcatggctcttcaatgt---gaagGTTGGTTTTACAAACGAGGGAAAAGTTATGGCATTGGACCTTCAGATATATAACAATGGTGGCAACTCATTGGATCTTTCGGACGCTGTTCTGGAGAGAT
upper sequence: AT4G34890.1 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: EFJ33495 (Selaginella moellendorffii), 3'ss of exon 7
gtatttccagttatttccccggaatttttaggcagtgagcaatgaaatggaaagaaacggttgtcagtagaagaaacagtgggaatagattgttagacaaactaaacaattcctttttttattgtgttctgctatcttaaagGTTGGATTTACGAACGAAGGAAAAATATTGGCGTTGGACCTTGAAATTTACAACAATGGTGGCAACTCTTTGGATCTCTCCCTTTCTGTTCTTGAACGTG
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---------------------------------------------------------------------------------gtaccttgttatttatccatgtgtgcgttgctttgattcatcgctcttcaatgt---gaagGTTGGTTTTACAAACGAGGGAAAAGTTATGGCATTGGACCTTCAGATATATAACAATGGTGGCAACTCATTGGATCTTTCGGACGCTGTTCTGGAGAGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattgttagacaaactaaacaattcctttttttattgtgttctgctatcttaaagGTTGGATTTACGAACGAAGGAAAAATATTGGCGTTGGACCTTGAAATTTACAACAATGGTGGCAACTCTTTGGATCTCTCCCTTTCTGTTCTTGAACGTG
aactaaa putative branch site (score: 2)
ttctgct putative PPT
taaacaattccttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttccagttatttccccggaatttttaggcagtgagcaatgaaatggaaagaaacggttgtcagtagaagaaacagtgggaatagattgttagacaaactaaacaattcctttttttattgtgttctgctatcttaaagGTTGGATTTACGAACGAAGGAAAAATATTGGCGTTGGACCTTGAAATTTACAACAATGGTGGCAACTCTTTGGATCTCTCCCTTTCTGTTCTTGAACGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG