Sequence
atgc intronic sequence ATGC exonic sequence...gttatattagctggatgtcctggattgcatggtctccttttgctaacatattcatgatattgacagatcacttaacactccttttcttttccatttatagTGATGGTGAAACTTTTATATCAGCTGATGATCTCCGGATAAATCTCTGGAACTTGGAAATTAGCAGTCAAAGTTTCAACATTGTTGATGTGAAGCCTGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g41630.1 (Oryza sativa), 3'ss of exon 6
------gttatattagctggatgtcctggattgcatg--gtctccttttgctaacatattcatgatattgacagatcacttaacactccttttcttttccatttatagTGATGGTGAAACTTTTATATCAGCTGATGATCTCCGGATAAATCTCTGGAACTTGGAAATTAGCAGTCAAAGTTTCAACATTGTTGATGTGAAGCCTGCA
| | | || | |||| ||| | | | || | | || ||| || ||||| || | ||| |||| ||||| | ||||||||||| ||||| |||||||| |||||| | ||||||||||| ||||| ||||||||||||| |||||||| |||||| ||||||| || ||| ||
tttgctgatgtgcatctcatatacattcgattagatgtaatgtaccctttcgagt---tttatg-tagtgacatattgttgcctgctcttttttttttcgac----agTGATGGTGAGACTTTCATATCAGCAGATGATTTGCGGATAAATCTTTGGAATTTGGAAATTAGCAACCAAAGTTTTAACATTATTGATGTTAAACCTACA
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os02g13110.2 (Oryza sativa), 3'ss of exon 6
gttatattagctggatgtcctggattgcatggtctccttttgctaacat---attcatgatattgacagatcacttaacactccttttcttttccatttatagTGATGGTGAAACTTTTATATCAGCTGATGATCTCCGGATAAATCTCTGGAACTTGGAAATTAGCAGTCAAAGTTTCAACATTGTTGATGTGAAGCCTGCA
| | | || | || | || | || ||| || | | | |||||| ||| || | | | || | | || | ||||| || || || | |||||||| |||||||| || |||||||| |||||| |||||||||||| ||||| || || |||||||||||||||||||||
-ctgtgtgagttctctgaacct-ataatactacctgcttctgtatattttcaaatcatgagcatga-agctaataccatgttctcatattgttttacacccagTGACGGGGAGACATACATATCAGCAGATGATCTGCGAATAAATCTTTGGAACCTGGAAATTAGCAACCAAAGCTTTAATATTGTTGATGTGAAGCCTGCA
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G164185_T02 (Zea mays), 3'ss of exon 6
gttatattagctggatgtcctggattgcatg-gtctccttttgctaacatattcatgatattgacagatcacttaacactccttttcttttccattt--atagTGATGGTGAAACTTTTATATCAGCTGATGATCTCCGGATAAATCTCTGGAACTTGGAAATTAGCAGTCAAAGTTTCAACATTGTTGATGTGAAGCCTGCA
|| | | || | || | || | || | || | | | ||||| | | || | | || | | | |||| | ||||||||||| || |||||||||||||||||| | ||||||||||| ||||| |||||||| |||| |||||||||||| ||| ||||||| |||||| ||
-ttgc-tgatttgcacctcttatatcttaaatgtatgctgccattttttgtattgtcctattgggtagtgatata-tattatttgtaatctttatttcaacagTGATGGTGAGACATTTATATCAGCTGATGATTTGCGGATAAATCTATGGAATTTGGAAATCAGCAATCAAAGTTTCAATATTATTGATGTTAAGCCTACA
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G142334_T02 (Zea mays), 3'ss of exon 6
---gttatattagctggatgtcctggattgcatggtctccttttgctaacatattcatgatattgacagatcacttaacactccttttcttttccatttatagTGATGGTGAAACTTTTATATCAGCTGATGATCTCCGGATAAATCTCTGGAACTTGGAAATTAGCAGTCAAAGTTTCAACATTGTTGATGTGAAGCCTGCA
||| | | || || || |||| | | | | | ||| || || ||||| | | || | | | | | | | ||||||||||| || |||||||||||||||||| | ||||||||||| ||||| |||||||| |||| |||||||||||| ||| ||||||| |||||| ||
tatgttgc-tgatttgcccctcatgtattgtagcttaactgtactttgccatttttttg-tattgggtagtaatata-tatattgtaacctctatttccacagTGATGGTGAGACATTTATATCAGCTGATGATTTGCGGATAAATCTTTGGAATTTGGAAATCAGCAATCAAAGTTTCAATATTATTGATGTTAAGCCTACA
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G165418_T04 (Zea mays), 3'ss of exon 6
gttatattagctggatgtcctggattgcatggtctccttttgctaacatattcatga-tattgacagatcacttaacactccttttcttttccatttatagTGATGGTGAAACTTTTATATCAGCTGATGATCTCCGGATAAATCTCTGGAACTTGGAAATTAGCAGTCAAAGTTTCAACATTGTTGATGTGAAGCCTGCA
| ||||| ||| | | |||| || || ||| | | ||| || |||| || || | || || | || | ||||||||||| || || |||||||| ||||||||||| |||||| | |||||||||||||| | ||| || || || ||||||||||||||||||||| ||
ttaatattc-ctgcagggtgcagattccaaatacttcttcaatgataacatttgtgggcattgtattgatacatattcttgtattatttgttaatcgacagTGATGGTGAGACATTCATATCAGCAGATGATCTCCGAATAAATTTATGGAACTTGGAAATAAACAGCCAGAGCTTTAACATTGTTGATGTGAAGCCTACA
upper sequence: Vv04s0008g00840.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G069631_T02 (Zea mays), 3'ss of exon 6
gttatattagctgg-atgtcctggattgcatggtctccttttgctaacatattcatgatattgaca-gatcacttaacactccttttcttttccatttatagTGATGGTGAAACTTTTATATCAGCTGATGATCTCCGGATAAATCTCTGGAACTTGGAAATTAGCAGTCAAAGTTTCAACATTGTTGATGTGAAGCCTGCA
| || || | || | | || | | || | | | | | |||| | | | | | | | | || || | || ||||| ||||| || |||||||| |||||||| || ||||| || ||||| || |||||||||| ||| || || ||||||||||||||||| ||||||
--tgaatgagttaatgtggctgagttttttttggatcttatattttgctgcctgggtttattactatggtgataccatgtcctcactttgttttgttcacagCGATGGAGAAACGTTCATATCAGCAGATGATCTGCGAATAAACCTTTGGAATTTAGAAATTAGCAATCAGAGCTTTAACATTGTTGATGTGAAACCTGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acatattcatgatattgacagatcacttaacactccttttcttttccatttatagTGATGGTGAAACTTTTATATCAGCTGATGATCTCCGGATAAATCTCTGGAACTTGGAAATTAGCAGTCAAAGTTTCAACATTGTTGATGTGAAGCCTGCA
cactccttttcttttc CT-rich tract
ttttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttatattagctggatgtcctggattgcatggtctccttttgctaacatattcatgatattgacagatcacttaacactccttttcttttccatttatagTGATGGTGAAACTTTTATATCAGCTGATGATCTCCGGATAAATCTCTGGAACTTGGAAATTAGCAGTCAAAGTTTCAACATTGTTGATGTGAAGCCTGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - ctggatg
- - - - - - - - -tcctgga
- - - - - - - - - - - - - -catggtc
- - - - - - - - - - - - - - - - - - - - tgctaac