Sequence
atgc intronic sequence ATGC exonic sequence...atattgggaggttctccatcccaaggaggcctgcaaaagttccaattagctgctaatgtttctgattttttgttctgctcatggggcaacttgttcccagAATCAATTTTTCATATCAGGTCTTTCAGGTGATGAGATAATACGCAATCGAGTATTAGAAGTGTTATACAGGCGTATTATGCAAGCATACAATGATAAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os01g20860.1 (Oryza sativa), 3'ss of exon 11
----------------------------------------------atattgggaggttctccatcccaaggaggcctgcaaaagttccaattagctgctaatgt-----ttctgattttttgttctgctcatggggcaacttgttcc---------cagAATCAATTTTTCATATCAGGTCTTTCAGGTGATGAGATAATACGCAATCGAGTATTAGAAGTGTTATACAGGCGTATTATGCAAGCATACAATGATAAGA
| || | | || | || || ||| | | ||| || || | ||| | ||| ||| | || | | || | |||||||| ||||||||||||||||||||||| ||||| | |||| || || |||||||||| |||||||||||||| | |||| | || || || |
gtgctgaaccttttttaatctcttgattttcaaatgtaatccacaaactccaagaaaatttgtatatttggaagtattg-aaatttcatacctagatgatacaatacagattcatttcacttggtctaaactctaagcttcattttactggtctatgcagAATCAGTTTTTCATATCAGGTCTTTCAGGAGATGACACAATAAAAAACCGTGTATTAGAAGCATTATACAGGCGTATACTTAGAGCAGAAAAGGAGAAAA
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os05g29050.1 (Oryza sativa), 3'ss of exon 12
atattgggaggttctccatcccaaggaggcctgcaaaagt-tccaattagctgcta--atgtttctgattttttgttctgctcatggggcaacttgttcccagAATCAATTTTTCATATCAGGTCTTTCAGGTGATGAGATAATACGCAATCGAGTATTAGAAGTGTTATACAGGCGTATTATGCAAGCATACAATGATAAGA
| || | | | || || |||| | ||||| | | | | | | || || | || | | ||| ||| || ||||||||||||||||||||||| |||||||| ||||| | ||| ||||| ||||| |||| ||||||||||| || | | ||| | | || || |
---aaaaaatcttttttttttgcacacatactccataagtatgtaattaatatccatgagactgccaaattgttaacatcctatttgcgcaccttttttgcagAATCAATTTTTCATATCAGGCCTTTCAGGAGATGAAACGATAAAAAATCGTGTATTGGAAGCATTATACAGGCGCATACTTCGGGCAGAGAGAGAAAAAA
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G158008_T01 (Zea mays), 3'ss of exon 3
--------------------------------------------------------------------------------------------atattgggaggttctccatcccaaggaggcctgcaaaagttccaattagctgctaatgtttctgattttttgttctgctcatggggcaacttgttcccagAATCAATTTTTCATATCAGGTCTTTCAGGTGATGAGATAATACGCAATCGAGTATTAGAAGTGTTATACAGGCGTATTATGCAAGCATACAATGATAAGA
||| || || | | | || | || | | ||| ||| || || | | | | | || ||| || |||||||| |||||||| |||||||||||||| ||||| | ||| ||||| |||||||||| |||| ||||| || | |||| | || || || |
gtgtgttttcttagctctgcagttttaagccataagatttaagttttattgtaacacttgatattcagagttattcacgttcatatgtttgagaattaatagacctcatatttcgat-atgcacatataattacaaatagactgatatcccttgtaacatacattcgttcttctgg-------cctttgcagAATCAGTTTTTCATTTCAGGTCTTTCAGGGGATGACACAATTAAGAATCGTGTATTAGAAGCACTATATAGGCGCATACTTAGAGCAGAAAAAGAGAAAA
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GRMZM2G066485_T01 (Zea mays), 3'ss of exon 12
-atattgggaggttctccatcccaaggaggcctgcaaaagttccaattagctgctaatgtttctgattttttgttctgctcatggggcaacttgttcccagAATCAATTTTTCATATCAGGTCTTTCAGGTGATGAGATAATACGCAATCGAGTATTAGAAGTGTTATACAGGCGTATTATGCAAGCATACAATGATAAGA
| ||| | || || | | || | | | | | || | | ||||||||| | | || | || |||||||||||||||||||| ||||| ||||| ||||| | || || || ||| | |||| || || |||| || | ||| | | || || |
aaaattaacactttttcactaagtgctaagcacctagttactaaacagtgaagatatactaccaaattttttgtaacatcctttttatgacgt-tttgcagAATCAATTTTTCATATCGGGTCTGTCAGGAGATGATACGATTAAAAACCGCGTACTGGAAGCATTGTATCGGCGCATACTTAGAGCTGAAAGAGAGAAAA
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA09G04620.1 (Glycine max), 3'ss of exon 13
atattgggaggttctccatcccaaggaggcctgcaaaagttccaattagctgctaatgtttct--gattttttgttctgctcatggggcaacttgttcccagAATCAATTTTTCATATCAGGTCTTTCAGGTGATGAGATAATACGCAATCGAGTATTAGAAGTGTTATACAGGCGTATTATGCAAGCATACAATGATAAGA
| || | || | | || || | | | | ||| | | | ||||| || | || | | || | ||| | | |||| ||||||||||||| || ||||||||||| || |||||||| ||||| ||||| || ||||||| ||||| | || ||||||| ||| |||||||| || |
aaatggcattattgtaaactaaaatgatacttatcacatccttaatctgttctggacctttctctgactgttccatttcatccttggg-agtatattcc-agAATCAATTTTTTATCTCAGGTCTTTCTGGAGATGAGATGATACGGAATCGTGTGTTAGAAGCTTTATATCGACGGATTATGCGAGCTTACAATGACAAAA
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA15G16270.1 (Glycine max), 3'ss of exon 13
--atattgggaggttctccatcccaaggaggcctgcaaaagttccaattagctgctaa--tgtttctgattttttgttctgctcatggggcaacttgttcccagAATCAATTTTTCATATCAGGTCTTTCAGGTGATGAGATAATACGCAATCGAGTATTAGAAGTGTTATACAGGCGTATTATGCAAGCATACAATGATAAGA
||||| | || || | || | | ||| | | | | ||||||| | || | | || ||| | | | |||| ||||||||||||| || || |||||||| || |||||||| ||||| ||||| || ||||||| ||||| | || ||||||| ||| |||||||| || |
agttattgtctaaagta--actaaaatgatacttgtcacatccttaatctgttctggacctttttctgactgttccatttcatctctggg-agcatattcc-agAATCAATTTTTTATCTCGGGTCTTTCTGGAGATGAGATGATACGGAATCGTGTGTTAGAAGCTTTATATCGACGGATTATGCGAGCTTACAATGACAAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagctgctaatgtttctgattttttgttctgctcatggggcaacttgttcccagAATCAATTTTTCATATCAGGTCTTTCAGGTGATGAGATAATACGCAATCGAGTATTAGAAGTGTTATACAGGCGTATTATGCAAGCATACAATGATAAGA
cttgttccc CT-rich tract
attttttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atattgggaggttctccatcccaaggaggcctgcaaaagttccaattagctgctaatgtttctgattttttgttctgctcatggggcaacttgttcccagAATCAATTTTTCATATCAGGTCTTTCAGGTGATGAGATAATACGCAATCGAGTATTAGAAGTGTTATACAGGCGTATTATGCAAGCATACAATGATAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - -ccatccc
- - - - - - - - - - - - - - -cctgcaa
- - - - - - - - - - - - - - - - - - - - - - - - -ctgctaa