Sequence
atgc intronic sequence ATGC exonic sequencegtttccttaaatatacacactttattgaatctccacaatattttttaacatgcttctgatattttgttacttaaaacatttttcgagcagACACAACCAGCTTTACCAGTTCTTGAGCGCCTTGTGCAATCAATGGATGAAGAAGTTCTCACAGATGCATGCTGGGCTCTGTCATACCTCTCGGATAATT
Basic information
species | Arabidopsis thaliana |
transcript | AT4G02150.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G02150.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: LOC_Os01g14950.1 (Oryza sativa), 3'ss of exon 5
gtttccttaaatatacacactttattgaatctccacaatattttttaacatgcttctgatattt--tgttacttaaaacatttttcgagcagACACAACCAGCTTTACCAGTTCTTGAGCGCCTTGTGCAATCAATGGATGAAGAAGTTCTCACAGATGCATGCTGGGCTCTGTCATACCTCTCGGATAATT
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--------gtttggacaaagtttctttgtactctactgtagttagtagggaaagacagttccttaacatgatgtttattgggtgtcaa-tagACTAGGCCTGCTCTTCCAGCACTGGCACGGCTTATTCACTCCAATGATGAGGAAGTTCTCACTGATGCGTGCTGGGCTCTTTCATATTTATCTGATGGCA
upper sequence: AT4G02150.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G088231_T01 (Zea mays), 3'ss of exon 5
gtttccttaaatatacacactttattgaatctccacaatattttttaacatgcttctgatattttgttacttaaaacatttttcga-gcagACACAACCAGCTTTACCAGTTCTTGAGCGCCTTGTGCAATCAATGGATGAAGAAGTTCTCACAGATGCATGCTGGGCTCTGTCATACCTCTCGGATAATT
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---gttttaaaca---agacttcttttaactgc-----ttttctgtaac-tgtggtaactaactaaacatgtttatctttggctgttatagACTAAGCCTGCTCTGCCAGCACTTGCACGACTTATCCATTCCAACGACGAGGAAGTTCTCACTGATGCATGCTGGGCCCTGTCATACTTATCTGACGGCA
upper sequence: AT4G02150.1 (Arabidopsis thaliana), 3'ss of exon 5
lower sequence: GRMZM2G091119_T02 (Zea mays), 3'ss of exon 5
gtttccttaaatatacacactttattgaatctccacaatattttttaacatgcttctgatattttgttacttaaaacatttttcgagcagACACAACCAGCTTTACCAGTTCTTGAGCGCCTTGTGCAATCAATGGATGAAGAAGTTCTCACAGATGCATGCTGGGCTCTGTCATACCTCTCGGATAATT
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--gtcgtagacaagacttctttaattgcttttctgtaacagtggttactaaata---aacatgttattctttga----ctgtt---acagACTAAGCCTGCTCTGCCAGCACTTGCACGACTTATCCATTCCAACGATGAGGAAGTTCTCACTGATGCTTGCTGGGCTTTGTCATACTTATCTGACGGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caatattttttaacatgcttctgatattttgttacttaaaacatttttcgagcagACACAACCAGCTTTACCAGTTCTTGAGCGCCTTGTGCAATCAATGGATGAAGAAGTTCTCACAGATGCATGCTGGGCTCTGTCATACCTCTCGGATAATT
catttttc CT-rich tract
tgatattttgttactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttccttaaatatacacactttattgaatctccacaatattttttaacatgcttctgatattttgttacttaaaacatttttcgagcagACACAACCAGCTTTACCAGTTCTTGAGCGCCTTGTGCAATCAATGGATGAAGAAGTTCTCACAGATGCATGCTGGGCTCTGTCATACCTCTCGGATAATT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG