Sequence
atgc intronic sequence ATGC exonic sequence...cttatgtatctagattacttttcttgtttcatctccctagtaaatgttctaacctattggagattttgtgattgtgttggttgatattgttttatatcagGTGCGTGAGTTAGCTGAAAAGGAGTCTGAGAATGGTGTCTTCAAAATGCTCCGCAGTGATGTTACTCGTTTCTTAACGACTATACTTATAGGCACAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0090g01820.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g39640.1 (Oryza sativa), 3'ss of exon 1
cttatgtatctagattacttttcttgtttcatctccctagtaaatgttctaacctattggagattttgtgattg-tgttgg---ttgatattgttttatatcagGTGCGTGAGTTAGCTGAAAAGGAGTCTGAGAATGGTGTCTTCAAAATGCTCCGCAGTGATGTTACTCGTTTCTTAACGACTATACTTATAGGCACAAC
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-gtccccaccttgtttatcatcc--attaaaccctgttggttgatggta-gtccttttcatgtctaaacaattgatgcttagatttggttttctgttccactagGTTCGTGAGTTGGCTGAAAAGGAACCTGAAAATGGTGTTTTCAGAATGCTCCGAAGTGATGTTACTCGCTTCCTGACAACCATACTCATTGGCACAAC
upper sequence: Vv19s0090g01820.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA02G46780.1 (Glycine max), 3'ss of exon 1
-----cttatgtatctagattacttttct---tgtttcatctccctagtaaatgttctaacctattggagattttgtgattgtgttggttgatattgttttatatcagGTGCGTGAGTTAGCTGAAAAGGAGTCTGAGAATGGTGTCTTCAAAATGCTCCGCAGTGATGTTACTCGTTTCTTAACGACTATACTTATAGGCACAAC
|| ||| || | ||| || || | | || | || ||| |||| || | || | | | | || ||| | | | |||| |||||||| ||||||||||||||||| || |||||||||| | | ||||| |||||||||||||| ||| | || || |||||||| ||||||||
catattttgcacatcagatttgttattcactatgattagtttagctgattaaagtttgaaccct---gaattcttataaatat-----ctgttatgacaatgtgtaagGTTCGTGAGTTGGCTGAAAAGGAGTCTGAAAACGGTGTCTTCAGACTACTCCGAAGTGATGTTACTCGGTTCCTTACCACAATACTTATTGGCACAAC
upper sequence: Vv19s0090g01820.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G01920.1 (Glycine max), 3'ss of exon 1
--------cttatgtatctag---attacttttcttgtttcatctccctagtaaatgttctaacctattggagattttgtgattgtgttggttgatattgttttatatcagGTGCGTGAGTTAGCTGAAAAGGAGTCTGAGAATGGTGTCTTCAAAATGCTCCGCAGTGATGTTACTCGTTTCTTAACGACTATACTTATAGGCACAAC
|| ||| |||| || || || || | || | || ||| ||||| | ||| | | | |||||| | | || |||| |||||||| || ||||||||| |||| ||||| ||||||| | | ||||| |||||||||||||| ||| | || || |||||||| ||||||||
ttgcagattttgcacatcagatttattatttactatgattaatttagctgattaaagtttgaacct----ggaattcta-----atatctgttgatgacaatgtgta--agGTTCGTGAGTTGGCCGAAAAGGAGCCTGAAAATGGCGTCTTCAGACTACTCCGAAGTGATGTTACTCGGTTCCTTACAACAATACTTATTGGCACAAC
upper sequence: Vv19s0090g01820.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G13070.1 (Arabidopsis thaliana), 3'ss of exon 1
cttatgtatctagattacttttcttgtttcatctccctagtaaatgttctaacctattgga--gattttgtgattgtgttggttgatat-tgttttatatcagGTGCGTGAGTTAGCTGAAAAGGAGTCTGAGAATGGTGTCTTCAAAATGCTCCGCAGTGATGTTACTCGTTTCTTAACGACTATACTTATAGGCACAAC
|| | |||| ||| | ||||| || | | | ||| || | ||||| || || || | || | | |||| ||||||||||||||| ||||| || || | ||||||||||| |||| ||||||||| |||||||| || | ||||| |||||||||||||| || |||||
---gaaaattccatacaatttttttgcctggtctccaatgttcttataatgttgtatctgattggttttgacatattgctgtgttatgtacggcttatctcagGTGCGTGAGTTGGCTGAGAAAGAACCAGAGAATGGTGTATTCAGAATGCTCCGGAGTGATGTCACCAGATTCTTGACGACTATACTTATTGGAACAAC
upper sequence: Vv19s0090g01820.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G55930.1 (Arabidopsis thaliana), 3'ss of exon 1
----------------------------cttatgt--atctagattacttttcttgtttcatctccctagtaaatgttctaacctattgga-gattttgtgattgtgttggttgatat-tgttttatatcagGTGCGTGAGTTAGCTGAAAAGGAGTCTGAGAATGGTGTCTTCAAAATGCTCCGCAGTGATGTTACTCGTTTCTTAACGACTATACTTATAGGCACAAC
| ||| || ||| | | | ||||| || | | | ||| || ||||| | || | | | |||| | || | ||| |||||| ||||||||||| ||||| |||||||| ||| |||| ||||| || |||| |||||||||||||||||||| | || || || || |||||||| || |||||
gtaataaataactcctctcctggattcagtaatgccaatgatgataagctgttctgtttttattcgtatcttcacgctcttgtctcttggatggttctttaaatgtggtagt-gttatgtgttttgtatcagGTGCGCGAGTTGGCTGAAAAAGAGCCTGAAAATGGCGTTTTCAGGATGCTCCGCAGTGATGTTACCAGATTTTTGACAACCATACTTATTGGAACAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttctaacctattggagattttgtgattgtgttggttgatattgttttatatcagGTGCGTGAGTTAGCTGAAAAGGAGTCTGAGAATGGTGTCTTCAAAATGCTCCGCAGTGATGTTACTCGTTTCTTAACGACTATACTTATAGGCACAAC
ttgtttt CT-rich tract
ttgatattgttttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttatgtatctagattacttttcttgtttcatctccctagtaaatgttctaacctattggagattttgtgattgtgttggttgatattgttttatatcagGTGCGTGAGTTAGCTGAAAAGGAGTCTGAGAATGGTGTCTTCAAAATGCTCCGCAGTGATGTTACTCGTTTCTTAACGACTATACTTATAGGCACAAC
- - - - - - - - - - - - - - - -tctccct
- - - - - - - - - - - - - - - - - - - - - - - - - - cctattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgttgg