Sequence
atgc intronic sequence ATGC exonic sequence...ttttattttgtatgtaatcaaagtctctttgtattctgctgattatagtttccctttcttccccatcctattttcctatcttgtcactgtctgcaaacagGGATTCAGGAAGGTTGATCCAGACCGTTGGGAATTTGCAAATGAGGGATTTTTGAGGGGTCAAAAACACCTATTGAGGAGTATAAATCGGCGAAAACCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g01810.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G384339_T02 (Zea mays), 3'ss of exon 2
-ttttattttgtatgtaatcaaagtctctttgtattctgctgatta--tagtttccctttcttccccatcctattttcctatcttgtcactgtctgcaaac-agGGATTCAGGAAGGTTGATCCAGACCGTTGGGAATTTGCAAATGAGGGATTTTTGAGGGGTCAAAAACACCTATTGAGGAGTATAAATCGGCGAAAACCTG
|| |||| | || | ||| | | | || || | | || | | |||| | |||| || || || | || |||| || || ||||||||||||||| | |||||||||||||||||||| ||| |||| || |||||||| || ||| || ||| || | | |||||
ccttaatttgatttgcactcagctgacaatcgggagagattattttctcagctaacaattatattgcgccctaa----cgatctcatcggtgccttcttaccagGGGTTTAGAAAGGTTGATCCAGACAGATGGGAATTTGCAAATGAGGGTTTTCTGAGAGGACAAAAACATCTGCTGAAGACTATCAACAGAAGGAAACCAT
upper sequence: Vv02s0012g01810.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G115456_T01 (Zea mays), 3'ss of exon 1
ttttattttgtatgtaatc-aaagtctctttgtattctgctgattatagtttccctttcttc--cccatcctattttcctatcttgtca-ctgt---ctgcaaacagGGATTCAGGAAGGTTGATCCAGACCGTTGGGAATTTGCAAATGAGGGATTTTTGAGGGGTCAAAAACACCTATTGAGGAGTATAAATCGGCGAAAACCTG
| || | ||| | ||| | | | | | ||| || |||| | | || | | | ||||| |||| | | ||||| || || ||||||||||||||| | |||||||||||||||||||| ||| |||| || || || || || ||| || ||| || | | |||||
-------tcacatatgatctgcactctactggcaattggaagatgctattttctcagcaaacaatttatattgcaccctaacgatgtcatctgtgcctttttaccagGGGTTTAGAAAGGTTGATCCAGACAGATGGGAATTTGCAAATGAGGGTTTTCTGAGAGGACAGAAGCATCTGCTGAAGACTATCAACAGAAGGAAACCAT
upper sequence: Vv02s0012g01810.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G33920.1 (Glycine max), 3'ss of exon 2
ttttattttgtatgtaatcaaagtctctttgtattctgctgattatagtttccctttcttccccatcctattttcctatcttg---tcactgtctgcaaacagGGATTCAGGAAGGTTGATCCAGACCGTTGGGAATTTGCAAATGAGGGATTTTTGAGGGGTCAAAAACACCTATTGAGGAGTATAAATCGGCGAAAACCTG
| | | || ||| ||| || || ||| | | | ||| | |||| || | | | || | ||| | ||| | || | |||||| |||||||||||||||||||| || |||||||||||||||||||| ||||||||||||||||| ||| | | |||||||||| | ||||||||||
-tctgtgttttatataac--aactcaagctgtgtgccttttcatatgccctgtcttttttttctcttcctttctaacatcgtcaattcattatcattatacagGGTTTCAGGAAGGTTGATCCAGATCGCTGGGAATTTGCAAATGAGGGTTTTTTGAGGGGTCAAAAGCACTTGCTTAGGAGTATAACAAGACGAAAACCTG
upper sequence: Vv02s0012g01810.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G13400.1 (Glycine max), 3'ss of exon 1
-----ttttattttgtatgtaatcaaagtctctttgtattctgctgattatagtttccctttcttccccatcctattttcctatcttgtcactgtctgcaaacagGGATTCAGGAAGGTTGATCCAGACCGTTGGGAATTTGCAAATGAGGGATTTTTGAGGGGTCAAAAACACCTATTGAGGAGTATAAATCGGCGAAAACCTG
||| || || ||| | | | |||| | | || | | | | || | | | ||| || | | ||| | || |||||||| |||||||| |||||||| || |||||||||||||||||||||||||||||||||||||| ||| | | | || ||||| |||||| |||||||
tttagtttgtttgtgcatgccaaaactataatgttgtgtatgtcaaatcaaacatcgaccttttcctttctaatatcatc--aacaattcatcatt---aagcagGGATTTAGGAAGGTAGATCCAGATCGCTGGGAATTTGCAAATGAGGGATTTTTGAGGGGTCAAAAGCACTTGCTTAAGACTATAACTCGGCGGAAACCTG
upper sequence: Vv02s0012g01810.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA01G01990.1 (Glycine max), 3'ss of exon 1
ttttattttgtatgtaatcaaagtctctttgtattctgctgattatagtttccctttcttccccatcctattttc---ctatcttgtcactgtctgcaaacagGGATTCAGGAAGGTTGATCCAGACCGTTGGGAATTTGCAAATGAGGGATTTTTGAGGGGTCAAAAACACCTATTGAGGAGTATAAATCGGCGAAAACCTG
| | | || | | || || | | || ||| || || | |||| || | ||| ||| | || | |||||| |||||||||||||||||||| || |||||||||||||||||||| ||||||| ||||||||| ||| | | |||||||| | || ||||||||||
-ataacaactcaagttgt--gtgccttttcagagtgtgttgacctctgtcctgtcttttcttttttccttttctaacgtcatcaattcattatcattatacagGGTTTCAGGAAGGTTGATCCAGATCGCTGGGAATTTGCAAATGAGGGTTTTTTGAAGGGTCAAAAGCACTTGCTTAGGAGTATTACACGACGAAAACCTG
upper sequence: Vv02s0012g01810.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT4G17750.1 (Arabidopsis thaliana), 3'ss of exon 1
---------------------------------------------------ttttattttgtatgtaatcaaagtctctttgtattctgctgattatagtttccctttcttccccatcctattttcctatcttgtcactgtctgcaaacagGGATTCAGGAAGGTTGATCCAGACCGTTGGGAATTTGCAAATGAGGGATTTTTGAGGGGTCAAAAACACCTATTGAGGAGTATAAATCGGCGAAAACCTG
|| || | ||||| || | | || ||| || | | | | | | || | ||| | | || || | | ||||||| || ||||| || |||||||| || ||||||||||| ||||| || || || || ||||||||||| ||||||| || |||| ||| ||||| |||
gtaagtataaattctctcgcgccctaatttctccaccattgatttctctaattgtactgtgtata-gattatgatttcgttgaataatcttagtgcttgatgtgtttgataa---gatttatatgattcatgtgccaattttgatgaacagGGTTTTAGGAAAGTGGATCCAGATCGATGGGAATTTGCTAATGAAGGTTTCTTAAGAGGTCAAAAACATCTATTGAAGAAGATAAGCCGGAGAAAATCTG
upper sequence: Vv02s0012g01810.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT1G32330.1 (Arabidopsis thaliana), 3'ss of exon 1
--ttttattttgtatgtaatcaaagtctctttgtattctgctgattatagtttccctttcttccccatcctattttcctat-cttgtcactgtctgcaaacagGGATTCAGGAAGGTTGATCCAGACCGTTGGGAATTTGCAAATGAGGGATTTTTGAGGGGTCAAAAACACCTATTGAGGAGTATAAATCGGCGAAAACCTG
||| |||| | | |||| | | | | || | | | || | ||| | | | |||| | || | |||||| |||||||||||||| ||||| | ||||||||||| ||||| || ||||| || ||||| || ||| | | |||| | ||||||||||||
gttttagatttgcactt--ctaaagctgtcggatgaattctttctcattggtcttggtggaatccattttcattccattttgcgtgtcttttcttg-atacagGGTTTCAGGAAGGTTGACCCAGATAGATGGGAATTTGCGAATGAAGGTTTTTTAAGAGGTCAGAAGCACTTGCTACAATCAATAACTAGGCGAAAACCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagtttccctttcttccccatcctattttcctatcttgtcactgtctgcaaacagGGATTCAGGAAGGTTGATCCAGACCGTTGGGAATTTGCAAATGAGGGATTTTTGAGGGGTCAAAAACACCTATTGAGGAGTATAAATCGGCGAAAACCTG
tatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttattttgtatgtaatcaaagtctctttgtattctgctgattatagtttccctttcttccccatcctattttcctatcttgtcactgtctgcaaacagGGATTCAGGAAGGTTGATCCAGACCGTTGGGAATTTGCAAATGAGGGATTTTTGAGGGGTCAAAAACACCTATTGAGGAGTATAAATCGGCGAAAACCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - tgtatgt
- - - - - - - -aatcaaa
- - - - - - - - - - - - - - - - - tctgctg