Sequence
atgc intronic sequence ATGC exonic sequence...cataaatacagctaggatttttcactttttataagtgatggttttaattaatcaaaagatttgttaaaatggctcaagaaacaacattatttgttttcagACAGTTCATCAAAATGATTATGAGCAAGATCCATATGCGAAGGAATTTGGGATCAACATTAGTGAGAAGCTAACCTCTGTTGAAGCCCGAGTCCTTCCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G079080_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os06g39640.1 (Oryza sativa), 3'ss of exon 8
cataaatacagctagg-atttttcactttttataagtgatggt-tttaattaatcaaaagatttgttaaaatggctcaagaaacaacattatttgttttcagACAGTTCATCAAAATGATTATGAGCAAGATCCATATGCGAAGGAATTTGGGATCAACATTAGTGAGAAGCTAACCTCTGTTGAAGCCCGAGTCCTTCCTG
| | | ||||| | | | || || | | | || | || |||| | |||||| ||||| |||||| || | |||| ||| ||||||||||| ||||||| ||||||||||| || ||||| || |||||||| |||||||||||||||||||||||||| |||||||| || ||||||||||
tgttca-atagctacccacccaataagtgctactagggtttctcttcacttgatcagcactcttgttataatggttcaagac-taaaaaaatttctttccagACAGTTCAACAAAATGGATATGAGCAAGACCCTTATGCAAAAGAATTTGGAATCAACATTAGTGAGAAGCTAACCTCAGTTGAAGCTCGGGTCCTTCCTG
upper sequence: GRMZM2G079080_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA20G28970.1 (Glycine max), 3'ss of exon 9
------cataaatacagctaggatttttcactttttataagtgatggttttaattaatcaaaagatttgttaaaatggctcaagaaacaacattatttgttttcagACAGTTCATCAAAATGATTATGAGCAAGATCCATATGCGAAGGAATTTGGGATCAACATTAGTGAGAAGCTAACCTCTGTTGAAGCCCGAGTCCTTCCTG
| ||| |||| | | | || || ||| || ||| ||| ||| | | ||| || ||| | || ||||| ||||| || |||| |||||| |||||||| ||||| ||||||||||| || || || ||||| |||||| | ||||||||||| ||| | |||||||
tattctcttaactaca--tgacactgttggggattcata-gtaatgattt-gtttattttttatttttatttgtatgtggtggtggttggggtcatacaa--gcagACCGTTCAACATAATGCTTATGATCAAGATCCTTATGCAAAGGAATTTGGAATTAAAATCAGTGAAAAGCTAGCTTCTGTTGAAGCACGAATTCTTCCTG
upper sequence: GRMZM2G079080_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA10G38770.1 (Glycine max), 3'ss of exon 9
--------cataaatacagctaggatttttcactttttataagtgatggttttaattaatcaaaagatttgttaaaatggctcaagaaacaacattatttgttttcagACAGTTCATCAAAATGATTATGAGCAAGATCCATATGCGAAGGAATTTGGGATCAACATTAGTGAGAAGCTAACCTCTGTTGAAGCCCGAGTCCTTCCTG
| ||| |||| | | | | || ||| || ||| ||| || || | ||| || ||| | || ||||| ||||| || |||| |||||| |||||||| ||||| ||||||||||| || || || ||||| |||||| | ||||||||||| ||| | ||||| |
tatattctcttaactaca--tgacactgtcggggcttcata-gtaatgattt--gtttattttatt-tttatttgtatgtggtggtggtgggggtcat--accaacagACCGTTCAACATAATGCTTATGATCAAGATCCTTATGCAAAGGAATTTGGAATTAAAATCAGTGAAAAGCTAGCTTCTGTTGAAGCACGAATTCTTCCGG
upper sequence: GRMZM2G079080_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA17G12850.1 (Glycine max), 3'ss of exon 8
cataaatacagctaggattt-ttcactttttataagtgatggttttaattaatcaaaagatttgttaaaatggctcaagaaacaacattatttgttttcagACAGTTCATCAAAATGATTATGAGCAAGATCCATATGCGAAGGAATTTGGGATCAACATTAGTGAGAAGCTAACCTCTGTTGAAGCCCGAGTCCTTCCTG
| | | || | |||||||| | || | ||| ||| | | || | ||| || || | || | | |||||| |||| ||||||||||||||| | |||| ||||| ||||| |||||||||| |||| ||||| | || ||||| || || || |||||||
-ttgtccttttcaatcatctattcactttacaaaaagaaaattttatattgttggtttggttgagtttaattaatctgtaactttcccaatatactagcagACAATTCACCAAAATGATTATGAGTATAATCCCTATGCCAAGGAGTTTGGGATCAGCATTGACAGCAAGCTTGCATCAGTTGAGGCTCGGGTTCTTCCTG
upper sequence: GRMZM2G079080_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA02G00510.1 (Glycine max), 3'ss of exon 8
cataaatacagctaggatttttcactttttataagtgatggttttaa--ttaatcaaaagatttgttaaaatggctcaagaaacaacattatttgttttcagACAGTTCATCAAAATGATTATGAGCAAGATCCATATGCGAAGGAATTTGGGATCAACATTAGTGAGAAGCTAACCTCTGTTGAAGCCCGAGTCCTTCCTG
| ||| | | | | | ||| |||| | | | ||| ||| | | |||| | | || | | || | | ||||| |||| || |||| ||||| |||||||| ||||| |||||||||||||| || |||||||| |||||| | ||||| ||||| ||| | || ||||
--tttatatcttcacaaacaaataatatatatccatgatattctagaagctaaacaataaagttgtgtcatcaaattaacatttcaattttgcttcatgcagACCATTCAGCACAATGCTTATGGTCAAGATCCTTATGCAAAGGAATTTGGGATTAAAATTAGTGAAAAGCTAGCTTCTGTAGAAGCGCGAATTCTCCCTG
upper sequence: GRMZM2G079080_T01 (Zea mays), 3'ss of exon 8
lower sequence: Vv05s0020g04190.t01 (Vitis vinifera), 3'ss of exon 8
--------cataaatacagctaggatttttcactttttataagtgatggttttaattaatcaaaagatttgttaaaatggctcaagaaacaacattatttgttttcagACAGTTCATCAAAATGATTATGAGCAAGATCCATATGCGAAGGAATTTGGGATCAACATTAGTGAGAAGCTAACCTCTGTTGAAGCCCGAGTCCTTCCTG
| | || | | |||| | | ||| | || |||||| || | | || | | ||| ||| |||| || | | ||||| ||||| || |||| |||||| |||||||||||||| ||||| ||||||||||| || ||||| || || | |||||||| || || | |||||||
tgtttgatcttggat--tgacatgattctgtgatgtttttgggtcttggtttagtttgagctaataacatcttat----gctttttaaacttcaaaaaataa--ccagACGGTTCAACATAATGCTTATGATCAAGATCCATATGCAAAGGAGTTTGGGATCAAAATCAGTGAAAAATTAGCTTCTGTTGAGGCTCGGATTCTTCCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aattaatcaaaagatttgttaaaatggctcaagaaacaacattatttgttttcagACAGTTCATCAAAATGATTATGAGCAAGATCCATATGCGAAGGAATTTGGGATCAACATTAGTGAGAAGCTAACCTCTGTTGAAGCCCGAGTCCTTCCTG
aattaat putative branch site (score: 3)
tttgttttc putative PPT
aaaagatttgttaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cataaatacagctaggatttttcactttttataagtgatggttttaattaatcaaaagatttgttaaaatggctcaagaaacaacattatttgttttcagACAGTTCATCAAAATGATTATGAGCAAGATCCATATGCGAAGGAATTTGGGATCAACATTAGTGAGAAGCTAACCTCTGTTGAAGCCCGAGTCCTTCCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC