Sequence
atgc intronic sequence ATGC exonic sequence...cagtacaatatagtgattgaaattttacgtcttcgaggtgtgctaaaatcttacatcaattctaataaacatgctctctctctctctcaccccttggcagAGACGATGTTACTGAGCGTGAAGATAAATGGCATGTTTATGTGACTGGTCATAGCTTGGGTGGCGCATTAGCTACACTCTTGGCTCTCGAACTTTCGTCC
Basic information
species | Arabidopsis thaliana |
transcript | AT4G13550.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G13550.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA20G20890.1 (Glycine max), 3'ss of exon 9
cagtacaatatagtgattgaaattttacgtcttcgaggtgtgctaaaatcttacatcaa--ttctaataaacatgctctctctctctctcacccct-tggcagAGACGATGTTACTGAGCGTGAAGATAAATGGCATGTTTATGTGACTGGTCATAGCTTGGGTGGCGCATTAGCTACACTCTTGGCTCTCGAACTTTCGTCC
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---tactgttttgtgtctctaattcttgagtccaacactatgccaatagtacatctcaaaatttgatttcgcattgacaaacagaaggtattttttgtgccagAGATGATCATTCTGAGTCGCTCCACAAATGGCATGTTTATGTGACTGGTCATAGTTTGGGTGGTGCATTGGCAACCTTGCTTGCTCTTGAACTTTCATCT
upper sequence: AT4G13550.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: GLYMA10G26510.1 (Glycine max), 3'ss of exon 3
cagtacaatatagtgattgaaattttacgtcttcgaggtgtgctaaaatcttacatcaattctaataa-acatgctctctctctctctcaccccttggcagAGACGATGTTACTGAGCGTGAAGATAAATGGCATGTTTATGTGACTGGTCATAGCTTGGGTGGCGCATTAGCTACACTCTTGGCTCTCGAACTTTCGTCC
| ||| | | ||| | |||| | | ||| || | | |||| | | || ||| | | | | || |||||| ||| | ||||| | ||||||||||||||||||||||||||||| |||||||| ||| | || || | | ||||| |||||||| ||
aattactgttttgtgtctctaattcttgagtccaacactatgccaacagtacatctcaaatttgatttcgcattgacaaacaaggtatt-ttttgtgccagAGATGATCATTCTGAGTCGCTCCACAAATGGCATGTTTATGTGACTGGTCATAGTTTGGGTGGTGCACTGGCAACCTTGCTTGCTCTTGAACTTTCATCT
upper sequence: AT4G13550.1 (Arabidopsis thaliana), 3'ss of exon 11
lower sequence: Vv05s0077g00480.t01 (Vitis vinifera), 3'ss of exon 5
--cagtacaatatagtgattgaaattttacgtcttcgaggtgtgctaaaatcttacatcaattc-taataaacatgctctctctctctctcaccccttggcagAGACGATGTTACTGAGCGTGAAGATAAATGGCATGTTTATGTGACTGGTCATAGCTTGGGTGGCGCATTAGCTACACTCTTGGCTCTCGAACTTTCGTCC
|| | | || | |||| || | |||| | |||| | || || | | ||| | ||| ||| ||| || | |||||||| |||| || ||| | ||||||||||| ||||||||||||||||| || ||||| |||||||| || || | || || || ||||| ||
atttatatggcaaaaagaattctattt-gcgctatatttgtgtcatgaaatgtgtaatttgttagtcaaaaagaagctga-tctttct-tcccttgggggcagAGATGATGGTAGGGAGATGCAGCTCAAATGGCATGTGTATGTGACTGGTCATAGTTTAGGTGGTGCATTAGCCACCCTTCTTGCGCTTGAGCTTTCATCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatcttacatcaattctaataaacatgctctctctctctctcaccccttggcagAGACGATGTTACTGAGCGTGAAGATAAATGGCATGTTTATGTGACTGGTCATAGCTTGGGTGGCGCATTAGCTACACTCTTGGCTCTCGAACTTTCGTCC
catgctctctctctct CT-rich tract
atcaattctaataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagtacaatatagtgattgaaattttacgtcttcgaggtgtgctaaaatcttacatcaattctaataaacatgctctctctctctctcaccccttggcagAGACGATGTTACTGAGCGTGAAGATAAATGGCATGTTTATGTGACTGGTCATAGCTTGGGTGGCGCATTAGCTACACTCTTGGCTCTCGAACTTTCGTCC
- - - - - - - - - - - - - - - - - - - - -gctaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - acatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taataaa