Sequence
atgc intronic sequence ATGC exonic sequencegtaactaactaactctttgctcaaaaaaaaaattattgtctcttaaactcaaaactgaacaaatcctttaaaattacagATGCGGACACATGTGTACTTGCTCAAAATGTGCAAATGAGCTTGTAAGAAACGGAGGAAAATGTCCGCTTTGTAGAGCACCGATCATCGAGGTAATCCGA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G04460.3 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G04460.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: LOC_Os02g57750.2 (Oryza sativa), 3'ss of exon 5
---------------gtaactaactaactctttgctcaaaaaaaaaattattgtctcttaaactcaaaactgaacaaatccttt-----aaaattacagATGCGGACACATGTGTACTTGCTCAAAATGTGCAAATGAGCTTGTAAGAAACGGAGGAAAATGTCCGCTTTGTAGAGCACCGATCATCGAGGTAATCCGA
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gtcagcttcacagctaaacatgtctgatactttgatgttactaatctctaaccttttttgtctgatgtacttgtaaaacccatttggtgatggtgacagATGCGGGCACATGTGTACTTGCTCAAAATGTGCAAACGAGCTAATTCGCAGTGGTGGCAAATGCCCACTATGCCGAGCGCCGATCGCGGAGGTGGTTCGG
upper sequence: AT5G04460.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GRMZM2G081965_T01 (Zea mays), 3'ss of exon 6
-------------gtaac-taactaactctttgctcaaaaaaaaaattattgtctcttaaactcaaaactgaacaaatcctttaaa-----attacagATGCGGACACATGTGTACTTGCTCAAAATGTGCAAATGAGCTTGTAAGAAACGGAGGAAAATGTCCGCTTTGTAGAGCACCGATCATCGAGGTAATCCGA
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gtgggtactccacatgacatttcaggttccttgtgcacaagctggtgtatgtgatgcgtgatttgtaatgctttaaacctttcgggtgatgatggcagGTGTGGGCACATGTGTACTTGCTCGAAATGTGCAAATGAGCTGGTGCGCAGCGGCGGCAAGTGCCCGCTCTGCCGGGCTCCCATCGTGGAGGTGGTCCGC
upper sequence: AT5G04460.3 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv13s0019g05390.t01 (Vitis vinifera), 3'ss of exon 6
------------------------------------------------------------------gtaactaact-aactctttgctcaaaaaaaaaattattgtctcttaaactcaaaactgaacaaatcctttaaaat------tacagATGCGGACACATGTGTACTTGCTCAAAATGTGCAAATGAGCTTGTAAGAAACGGAGGAAAATGTCCGCTTTGTAGAGCACCGATCATCGAGGTAATCCGA
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gtatatgcctgcttatttgtgctttttccctctgggatctatcttttttttttatcagaacctccgggatctatcttgggactaccttttaatttcgtgttgctgtttcttccccttatctttactgtcttccgttgaaaaaaaatgtgcagATGTGGGCACATGTGCACTTGTTCAAAATGTGCAAATGAGTTGGTTCGTGGTGGAGGAAAGTGCCCATTGTGCCGAGCCCCGATTGTTGAGGTCATCCGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaaaaaattattgtctcttaaactcaaaactgaacaaatcctttaaaattacagATGCGGACACATGTGTACTTGCTCAAAATGTGCAAATGAGCTTGTAAGAAACGGAGGAAAATGTCCGCTTTGTAGAGCACCGATCATCGAGGTAATCCGA
tccttta CT-rich tract
aaatcctttaaaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactaactaactctttgctcaaaaaaaaaattattgtctcttaaactcaaaactgaacaaatcctttaaaattacagATGCGGACACATGTGTACTTGCTCAAAATGTGCAAATGAGCTTGTAAGAAACGGAGGAAAATGTCCGCTTTGTAGAGCACCGATCATCGAGGTAATCCGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA