Sequence
atgc intronic sequence ATGC exonic sequencegtaagcgtttcatagtaccattagttgctatgtttgttattttgtttctatagggcaatttcttgactgtttggattggagtaatgttcatgcagGAAGGATGGTAACTCATGGAGCTCAGGGCCTGCACCCCCACCTCCACCAGGTACCCCTCCAGTCAGCAGAACCCCCCCAAAACACAAATCTGGTGGTAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA03G42360.1 (Glycine max), 3'ss of exon 9
gtaagcgtttcatagtaccattagttgctatgtttgttattttgtttctatagggcaatttcttgactgtttgg-attggagtaatgttcatgcagGAAGGATGGTAACTCATGGAGCTCAGGGCCTGCACCCCCACCTCCACCAGGTACCCCTCCAGTCAGCAGAACCCCCCCAAAACACAAATCTGGTGGTAAT
|||||| |||| | || | | || | | || ||| || | || | | ||| |||||| ||| | |||| | |||||| ||||||||||||| ||||||||||||||||| ||||| || ||||||| | || | || | ||||| |||||||||
gtaagcttttcccattataagcaatttggtaactaggaatcaaattttcatcataaatttctgtaaaactttaatattggacaaatttaacaatagGACCGGTGGTAATGCATGGAGCTCAGGTCCTGCACCCCCACCTCCTCCAGGGACGCCTCCAGCACCTAAAAGCAACCAGCACCACAAGTCTGGTGGTGGA
upper sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA19G45130.1 (Glycine max), 3'ss of exon 9
gtaagcgtttcatagtaccattagttgctatgtttgttattttgtttctatagggcaatttcttgactgtttgg-attggagtaatgttcatgcagGAAGGATGGTAACTCATGGAGCTCAGGGCCTGCACCCCCACCTCCACCAGGTACCCCTCCAGTCAGCAGAACCCCCCCAAAACACAAATCTGGTGGTAAT
|||||| |||| || || | | || | | || | | || | || | | | | |||||| ||| | |||| | |||||| ||||||||||||||||||||||||||||||| || || || ||||||| | || | || | ||||| |||||||||
gtaagcttttcctattataagcaatttgggaactaggaatcaaatgttcatcataaatttctgtaaaactctaatattggacaaatttaacaatagGACCGGTGGTAATGCATGGAGCTCAGGGCCTGCACCCCCACCTCCTCCTGGGACACCTCCAGCACCTAAAAGCAACCAGCACCACAAGTCTGGTGGTGGA
upper sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA16G01790.1 (Glycine max), 3'ss of exon 9
gtaagcgtttcatagtaccattagttgctatgtttgttattttgtttctatagggcaatttcttgactgtttggattggagtaatgttcatgcagGAAGGATGGTAACTCATGGAGCTCAGGGCCTGCACCCCCACCTCCACCAGGTACCCCTCCAGTCAGCAGAACCCCCCCAAAACACAAATCTGGTGGTAAT
|||||| || | | || || |||| | | | | ||| | || ||||| | | | || | ||| ||| | ||| ||||||||||| |||||||||||| ||||||||||||||||| || || || |||||||| || | ||| ||||||||||| ||| ||
gtaagcattg-acattatcagcagtttttgtaagaataaatttttcgtcat----caattctataaatcttgaaaatggtcaaatttaatgacagAAAGGATGGTAATGAATGGAGCTCAGGACCTGCACCCCCACCTCCTCCTGGGACACCTCCAGTAGTATCAAGAAATCGAAATCACAAATCTGGGGGTCAT
upper sequence: Vv09s0002g00150.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G05230.1 (Glycine max), 3'ss of exon 9
gtaagcgtttcatagtaccattagttgctatgtttgttat--tttgtttctatagggcaatttcttgactgtttggattggagtaatgttcatgcagGAAGGATGGTAACTCATGGAGCTCAGGGCCTGCACCCCCACCTCCACCAGGTACCCCTCCAGTCAGCAG-AACCCCCCCAAAACACAAATCTGGTGGTAAT
|||||| || |||||| || |||||||||| | ||| | ||||| | | | || | ||| ||| | ||| ||||||||||| |||||||||| || ||||||||||||||||| || || || ||||||| ||| || || || ||| |||||||||||||| ||
gtaagcatt-------gccattatcagcaatgtttgttagaatcaatttttcgtcatcaattctataaatcttgaaaatggtcaaatttgatgacagAAAGGATGGTAATGCATGGAGCTCGGGACCTGCACCCCCACCTCCTCCTGGGACACCTCCAG-CAGTAGCAAGAAACCGAAATCACAAATCTGGTGGACAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgtttctatagggcaatttcttgactgtttggattggagtaatgttcatgcagGAAGGATGGTAACTCATGGAGCTCAGGGCCTGCACCCCCACCTCCACCAGGTACCCCTCCAGTCAGCAGAACCCCCCCAAAACACAAATCTGGTGGTAAT
tcttgac putative branch site (score: 3)
aatttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcgtttcatagtaccattagttgctatgtttgttattttgtttctatagggcaatttcttgactgtttggattggagtaatgttcatgcagGAAGGATGGTAACTCATGGAGCTCAGGGCCTGCACCCCCACCTCCACCAGGTACCCCTCCAGTCAGCAGAACCCCCCCAAAACACAAATCTGGTGGTAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG