Sequence
atgc intronic sequence ATGC exonic sequence...gtttcttgaaaccatgtgatttgatcatctacactgtctaataaacttccttccttcctttttttaatattcaaatttgggtggttctacttcattgcagGTGAGAATGGATCCTAGGAACAAGGAGATTGATCTCGACAGTTTAATGTATGGAAAAATTACCCAGCTAACTGAGGAAGAGATGAAAAGACAGGAGGGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g00200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os03g19690.2 (Oryza sativa), 3'ss of exon 4
--gtttcttgaaaccatgtgatttgat-catctacactgtctaataaacttccttccttcctttttttaatattcaaatttgggtggttctacttcattgcagGTGAGAATGGATCCTAGGAACAAGGAGATTGATCTCGACAGTTTAATGTATGGAAAAATTACCCAGCTAACTGAGGAAGAGATGAAAAGACAGGAGGGGG
|| || | || | || | | |||||| | || | ||| | || |||| | | | | | |||||| |||||||||||| ||||||| || | |||||| || |||||||||||||| || ||||| || ||||| | |||| ||| || | |
ttcttactaacagacaggagaaataaagtgctcttgttgtctatct--ttaccattacacctgagagtggcat-caaacaccaatacaagttttccttggcagGTAAGAATGGATCCTCGGAACAACGAAACTGATCTTGATAGTTTAATGTATGGTGCGATAGGAAGACTAACAGAACAAGAGCTAAAAAAACAAGAAGCAG
upper sequence: Vv05s0077g00200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G135968_T01 (Zea mays), 3'ss of exon 4
gtttcttgaaacca-tgtgatttgatcatctacactgtctaataaacttccttccttcctttttttaatattcaaatttgggtggttc---tacttcattgcagGTGAGAATGGATCCTAGGAACAAGGAGATTGATCTCGACAGTTTAATGTATGGAAAAATTACCCAGCTAACTGAGGAAGAGATGAAAAGACAGGAGGGGG
| ||| | | | | | | | || | | ||||||| ||| | |||| | || || | |||| | | | | | |||||| |||||||||||| | ||||| || || ||||||| |||||||||||||| | |||| ||||| || |||| | |||| ||| || | |
----cctgactttactaaggacaaaactagtgctcttcatcttcgtcttcctttcttgttcttttgagatttgtaactaacatggtacatattttccttggcagGTTAGAATGGATCCTCGAAACAAAGAAGTTAATCTCGATAGTTTAATGTATGGTACAATTGGTGGACTAACAGAACAAGAACTAAAAAAACAAGAAGCAG
upper sequence: Vv05s0077g00200.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G36730.1 (Glycine max), 3'ss of exon 4
-----gtttcttgaaaccatgtgatttgatcatctac-actgtc-taataaacttccttccttcctttttttaatatt-caaatttgggtggttctacttcattgcagGTGAGAATGGATCCTAGGAACAAGGAGATTGATCTCGACAGTTTAATGTATGGAAAAATTACCCAGCTAACTGAGGAAGAGATGAAAAGACAGGAGGGGG
|| | | | | || || | ||| | | ||| | || || | | ||| || | | ||||| | || |||| |||||||| | |||||||| || |||||||||||||| || |||| |||||||| |||||| | | |||||||||||||| ||||||| ||| || || |
tcttcattcttcctgcttgttcagtgtcataattccctactattgtggtaattctattttgtttttatcttttttactgctaatttaaat--------tttattgtagGTGAGATTAGATCCTAGAAATAAGGAGATTGATCTTGATAGTTCAATGTATGAGAAAATTCCTGACCTAACTGAGGAAGATATGAAAAAACAAGAAGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttccttccttcctttttttaatattcaaatttgggtggttctacttcattgcagGTGAGAATGGATCCTAGGAACAAGGAGATTGATCTCGACAGTTTAATGTATGGAAAAATTACCCAGCTAACTGAGGAAGAGATGAAAAGACAGGAGGGGG
ttttaat putative branch site (score: 3)
ttctacttc putative PPT
ttcctttttttaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttcttgaaaccatgtgatttgatcatctacactgtctaataaacttccttccttcctttttttaatattcaaatttgggtggttctacttcattgcagGTGAGAATGGATCCTAGGAACAAGGAGATTGATCTCGACAGTTTAATGTATGGAAAAATTACCCAGCTAACTGAGGAAGAGATGAAAAGACAGGAGGGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - aaaccat
- - - - - - - - - - - - -catctac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgggtgg