Sequence
atgc intronic sequence ATGC exonic sequence...ttcccttttagtatgtttgctctcacttttggttcctgtcaatttataaatttcttgattttcttttatatttactgtgcttttggtgatattgatgcagGGATCTGCAAAAAGCGACATATAATTTTACAACATTGATAGGACAAGGTGCATTTGGTCCTGTTTATAAAGCTCAGATGTCAACCGGTGAGACGGTTGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g04960.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G34410.1 (Glycine max), 3'ss of exon 2
---ttcccttttagtatgtttgctctcacttttggttcctgtcaatttataaatttcttgattttcttttatatttactgtgcttttggtgatattgatgcagGGATCTGCAAAAAGCGACATATAATTTTACAACATTGATAGGACAAGGTGCATTTGGTCCTGTTTATAAAGCTCAGATGTCAACCGGTGAGACGGTTGCT
| ||| | | |||| | | | ||| | || || |||| ||||| || | | | | | ||||| || || | ||||||| ||||||| || |||||||||||||||||| | ||||||||||| |||||||||||||| ||||||||||||||||| || || ||||| |||||
caagtttacaatagctcgaacacaacaacttcttgattg-atcatgtcatttatctctttatttttttctttctgtttacttctttttgt--ctatgcttcagGGATTTGCAAAAGGCAACATATAATTTTACAACACTCATAGGACAAGGCGCATTTGGTCCTGTATATAAAGCTCAGATGTCTACTGGCGAGACTGTTGCA
upper sequence: Vv19s0014g04960.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G36140.2 (Glycine max), 3'ss of exon 2
ttcccttttagtat-gtttgctctcac----ttttggttcctgtcaatttataaatttcttgattttct-tttatatttactgtgcttttggtgatattgatgcagGGATCTGCAAAAAGCGACATATAATTTTACAACATTGATAGGACAAGGTGCATTTGGTCCTGTTTATAAAGCTCAGATGTCAACCGGTGAGACGGTTGCT
|| |||| || ||||| || | ||| ||| ||||| ||||| |||||| || | | ||| | |||| | |||| || | ||||||| ||||||| || |||||||||||||||||| | ||||| |||||||||||||||||||| ||||||||||||||||| || || ||||| || ||
atcaagtttacaatagtttgaaaacagaacatcttgtttcatgtca-tttatctctttcttttttctttctttctgtttaatactttttt-----ctgtgcttcagGGATTTGCAAAAGGCAACATATAATTTTACAACACTCATAGGGCAAGGTGCATTTGGTCCTGTATATAAAGCTCAGATGTCTACTGGCGAGACTGTGGCA
upper sequence: Vv19s0014g04960.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G16650.1 (Glycine max), 3'ss of exon 1
ttcccttttagtatgtttgctctcacttttggttcctgtcaatttataaatttcttg-attttcttttatatttactgtgcttttggtgatattgatgcagGGATCTGCAAAAAGCGACATATAATTTTACAACATTGATAGGACAAGGTGCATTTGGTCCTGTTTATAAAGCTCAGATGTCAACCGGTGAGACGGTTGCT
| | || | | | | | | | | | ||| || || ||||| || | | | || ||| | ||| | | ||||||| |||| || || ||| ||||||| || || | |||||||||||||||||||||||||||||||||||||||||||| || |||||||| |||||
actacagattgtttctaagagtgaaatccaaaatgattgaactctatgaaccgactgcatttttcattctttccattgaatcttttaagttat-gcttcagGGATTTGCAGAAGGCAACACATAATTTCACCACGGTCATAGGACAAGGTGCATTTGGTCCTGTTTATAAAGCTCAGATGTCTACTGGTGAGACTGTTGCA
upper sequence: Vv19s0014g04960.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G41510.1 (Glycine max), 3'ss of exon 2
ttcccttttagtatgtttgctctcacttttggttcctgtcaatttataaatttcttg-attttcttttatatttactgtgcttttggtgatattgatgcagGGATCTGCAAAAAGCGACATATAATTTTACAACATTGATAGGACAAGGTGCATTTGGTCCTGTTTATAAAGCTCAGATGTCAACCGGTGAGACGGTTGCT
| | | || | | | || | | | | ||| || || ||||| || | | || || ||| ||| | | ||||||| |||| || || ||| |||| || || ||| | || ||| |||| |||||||||||||||||||||||||||||||| ||||||||||| |||||
aacacaaattgttactaagagtggaattcaaaatgtttgaactctatgaaccgactgcatttttcattctttctattgaatgttttaatttat-gcttcagGGATTTGCAGAAGGCAACACATAACTTCACCACAGTCATTGGAGAAGGCGCATTTGGTCCTGTTTATAAAGCTCAGATGTCTACCGGTGAGACTGTTGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataaatttcttgattttcttttatatttactgtgcttttggtgatattgatgcagGGATCTGCAAAAAGCGACATATAATTTTACAACATTGATAGGACAAGGTGCATTTGGTCCTGTTTATAAAGCTCAGATGTCAACCGGTGAGACGGTTGCT
tattgat putative branch site (score: 3)
tttcttgattttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcccttttagtatgtttgctctcacttttggttcctgtcaatttataaatttcttgattttcttttatatttactgtgcttttggtgatattgatgcagGGATCTGCAAAAAGCGACATATAATTTTACAACATTGATAGGACAAGGTGCATTTGGTCCTGTTTATAAAGCTCAGATGTCAACCGGTGAGACGGTTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- ccctttt
- - - - - - - - - -ctctcac
- - - - - - - - - - - - - - - - - cctgtca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -actgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggtgat