Sequence
atgc intronic sequence ATGC exonic sequence...attcatcttgttctagttcttcaggtatctggttgctctaatattttcaagtaactgtattaatgtcaggttattgtgacaactcaattcttacatgcagATTGTGGCTTTTCTCATCCCCCTTTTAGACGATAAATTTCCTTTGATACGAAGTATTACTTGCTGGACCCTTTCTCGGTTTAGCAAATTCATTGTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g00910.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: LOC_Os04g59494.2 (Oryza sativa), 3'ss of exon 13
-----------------------------------------------------------------attcatcttgttctagttcttcaggtatctggttgctctaatattttcaagtaactgtattaatgtcaggttattgtgaca-actcaattcttacatgcagATTGTGGCTTTTCTCATCCCCCTTTTAGACGATAAATTTCCTTTGATACGAAGTATTACTTGCTGGACCCTTTCTCGGTTTAGCAAATTCATTGTTCAG
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gtatttttatcaattaactattgctgtatttaattccttgaacttcattaggaaaagagtagcatgtgtgtattgagactcacttttgatttcttcatctgtctattctgcttcccttctcattgtgaattgtacctatcctaacatgttctattc--atttgcagATTGTTGCTTTTCTTATTCCACTTCTTGACGATAAATTTCCTCTTATACGGAGTATTACTTGTTGGACCCTCTCCCGATATAGTAAATTCATTGTACAG
upper sequence: Vv18s0001g00910.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G312026_T01 (Zea mays), 3'ss of exon 13
attcatcttgttctagttcttcaggtatctggttgctctaatattttcaagtaactg--tattaatgtcaggttattgtgacaactcaattcttacatgcagATTGTGGCTTTTCTCATCCCCCTTTTAGACGATAAATTTCCTTTGATACGAAGTATTACTTGCTGGACCCTTTCTCGGTTTAGCAAATTCATTGTTCAG
| ||| || || || | | | || || || | || ||| ||| ||| | | | | | ||||||||||| || ||||| ||||| ||| | || |||||||||||| | ||||| |||||||| || ||||| || ||||| | ||||||||||||||||||
-gcaactatgtgctggtcatttttcttattatctatactg-taccgccatgcgtctcgctatatatgctgtacgattataagatagattcattgaaatgcagATTGTTGCCTTTCTAATCCCACTTCTTGATGATAAATTTCCTCTTATACGGAGTATTACGTGTTGGACGCTCTCTCGATACAGCAAATTCATTGTTCAG
upper sequence: Vv18s0001g00910.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GRMZM2G376731_T01 (Zea mays), 3'ss of exon 13
-attcatcttgttctagttcttcaggtatctggttgctctaatatttt-caagtaactgtat-taatgtcaggttattgtgacaactcaattcttacatgcagATTGTGGCTTTTCTCATCCCCCTTTTAGACGATAAATTTCCTTTGATACGAAGTATTACTTGCTGGACCCTTTCTCGGTTTAGCAAATTCATTGTTCAG
| || | | || ||| | ||| | || || | | | || ||| | ||| || | || | || ||| | ||||||||||| || || || ||||| ||| | || |||||||||||| | ||||| |||||||| || ||||| || ||||| | |||||||||||||||||||
actatgggttatagtcatttttcttat-tctctatactgtaccgccatgcgtcttgctatatatgctgtacattttataagatatcttcattg--aaatgcagATTGTTGCCTTCCTAATCCCACTTCTTGATGATAAATTTCCTCTTATACGGAGTATTACGTGTTGGACGCTCTCTCGATATAGCAAATTCATTGTTCAG
upper sequence: Vv18s0001g00910.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA20G24040.1 (Glycine max), 3'ss of exon 13
-attcatcttgttctagttcttcaggtatctggttgctctaatattttcaagtaactgtattaatgtcaggttattgtgacaactcaat-tcttaca--tgcagATTGTGGCTTTTCTCATCCCCCTTTTAGACGATAAATTTCCTTTGATACGAAGTATTACTTGCTGGACCCTTTCTCGGTTTAGCAAATTCATTGTTCAG
|||| | || | || ||| | | | || | | || | | || |||| |||| |||| |||| ||| | | || || | |||||||||| ||||| ||||| ||| | || ||||| |||||| |||||||||||||| | |||||||| || || || ||||||||||| |||||||||
cattcttattttactgagtct--ggttttgtgatctacattatgtggcccttgcttcttactaat-tcagaatatta-aacaattcattgttttgcatttatagATTGTGGCATTTCTTATCCCTCTTCTTGATGATAAGTTTCCTCTGATACGAAGTATTTCATGCTGGACACTATCACGATTTAGCAAATTTATTGTTCAG
upper sequence: Vv18s0001g00910.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA10G42960.1 (Glycine max), 3'ss of exon 13
-attcatcttgttctagttcttcaggtatctggttgctctaatattttcaagtaactgtattaatgtcaggttattgtgacaactcaattct---tacatgcagATTGTGGCTTTTCTCATCCCCCTTTTAGACGATAAATTTCCTTTGATACGAAGTATTACTTGCTGGACCCTTTCTCGGTTTAGCAAATTCATTGTTCAG
|||| | || | || ||| | | | || | | || | | || | || |||| |||| |||| | | | | | | |||||||||| ||||| |||| ||| | || ||||| |||||| |||||||||||||| | |||||||| || || || ||||||||||| ||| |||||
cattcttattttactgagtct--ggttttatgatctactttatgtggcccttgcttcttactgat-tcagaatatta-aacaattgattgttatgcatttatagATTGTGGCATTTCTTGTCCCTCTTCTTGATGATAAGTTTCCTCTGATACGAAGTATTTCATGCTGGACACTATCACGATTTAGCAAATTTATTATTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcaagtaactgtattaatgtcaggttattgtgacaactcaattcttacatgcagATTGTGGCTTTTCTCATCCCCCTTTTAGACGATAAATTTCCTTTGATACGAAGTATTACTTGCTGGACCCTTTCTCGGTTTAGCAAATTCATTGTTCAG
ttcttac putative branch site (score: 2)
ttcttac CT-rich tract
tgtattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attcatcttgttctagttcttcaggtatctggttgctctaatattttcaagtaactgtattaatgtcaggttattgtgacaactcaattcttacatgcagATTGTGGCTTTTCTCATCCCCCTTTTAGACGATAAATTTCCTTTGATACGAAGTATTACTTGCTGGACCCTTTCTCGGTTTAGCAAATTCATTGTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - cttcagg
- - - - - - - - - - - - - - -tggttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caactca