Sequence
atgc intronic sequence ATGC exonic sequence...tatttatttcatttcatatatgcacttcatttgaatgaattctttattacttattagcctaatatttgttttatggcatcttgcttgtgttggtcaacagGCAAGTTTAGGCACCTCCCTGTTGTAGAAAATGGTGAAGTTATTGCCATATTGGATATTACAAAGTGCCTCTATGATGCTATATCTCGAATGGAGAAGGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os11g06930.1 (Oryza sativa), 3'ss of exon 3
------tatttatttcatttcatatatgcacttcatttgaatgaattctttat-tacttattagcctaatatttgttttatggcatcttgcttgtgttggtcaacagGCAAGTTTAGGCACCTCCCTGTTGTAGAAAATGGTGAAGTTATTGCCATATTGGATATTACAAAGTGCCTCTATGATGCTATATCTCGAATGGAGAAGGC
| | ||| || || | ||| ||| | | | |||| | | | ||| ||| || | || || ||| ||| || |||||||||||||| || || ||||||||||| ||||||||||| | || ||| |||| |||||||||||||| ||||| || |||| |||||
atgggctcatcattccaattgttttatatactgtctctccgt--attccaagtatgttcattttcctctccttagagctaatatgaaacactcacgttt-----tagGAAAATTTAGGCACCTCCCAGTGGTGGAAAATGGTGAGGTTATTGCCATGCTAGACATTGCAAAATGCCTCTATGATGCAATATCAAGACTGGAAAAGGC
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os12g07190.1 (Oryza sativa), 3'ss of exon 3
tatttatttcatttcatatatgcacttcatttgaatgaattc--tttattacttattagcctaatatttgtt-ttatggcatcttgcttgtgttggtcaacagGCAAGTTTAGGCACCTCCCTGTTGTAGAAAATGGTGAAGTTATTGCCATATTGGATATTACAAAGTGCCTCTATGATGCTATATCTCGAATGGAGAAGGC
|| | || || || ||| | ||| || | ||| | | || | | | | || | ||| || | || | | | ||| || ||||| |||||||| ||||| ||||||||||| |||||||| || |||| ||| | || ||||| || ||||| ||||| || |||| |||||
-tttcactttgttacacatagac-cttggttggctagaaattagtccctttttcacaaacatactgactgtagtttctttaaaatgttcatacatattt-tagGTAAATTTAGACACCTCCCAGTTGTGGAAAATGGTGAGGTTATTGCTATGCTGGACATTGCTAAATGCCTTTACGATGCAATATCAAGACTGGAAAAGGC
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G052277_T01 (Zea mays), 3'ss of exon 3
-tatttatttcatttcatatatgcacttcatttgaatgaattctttattacttattagcctaatatttgttttatggcatcttgcttgtgttggtcaacagGCAAGTTTAGGCACCTCCCTGTTGTAGAAAATGGTGAAGTTATTGCCATATTGGATATTACAAAGTGCCTCTATGATGCTATATCTCGAATGGAGAAGGC
|| | |||| | | | | | |||||| || | | | ||| | || ||| | || || ||| | || ||| || ||||| ||||| || ||||||||||||||||| |||||||| || ||||| |||||||| |||||||||||||| ||||| || |||| |||||
gcataggctaaccctcatgtttttatgttacttgaataaacttacttcgatatatgctattcatcttt-ctgaatttaatgttgtagattttttatgttagGTAAATTTAGACACCTTCCAGTTGTAGAAAATGGTGAGGTTATTGCGATGTTGGACATTACAAAATGCCTCTATGATGCAATATCAAGACTGGAAAAGGC
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G131118_T01 (Zea mays), 3'ss of exon 1
--tatttatttcatttcat-atatgcacttcatttgaatgaatt--ctttattacttattagcctaatatttgttttatggcatcttgcttgtgttggtcaacagGCAAGTTTAGGCACCTCCCTGTTGTAGAAAATGGTGAAGTTATTGCCATATTGGATATTACAAAGTGCCTCTATGATGCTATATCTCGAATGGAGAAGGC
|| | | |||| || | | | |||||| || | |||| | ||| | | | || | | | || || | | | | ||| || ||||| ||||| || ||||| ||||||||||| |||||||| || |||| ||| |||| || ||||||||||| ||||| || |||| |||||
tgcataggctaaacctcattatttcaatgttccttgaataaacttactttgaggtatgttattcctgtctctg----aagttaatatgttttttcttatta-tagGGAAATTTAGACACCTTCCGGTTGTTGAAAATGGTGAGGTTATTGCGATGCTGGACATTGCAAAATGTCTCTATGATGCAATATCAAGACTGGAAAAGGC
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G126656_T01 (Zea mays), 3'ss of exon 3
tatttatttcatttcatatatgcacttca----tttgaatgaattctttattacttat-tagcctaatatttg-ttttatggcatcttg-cttgtgttggtcaacagGCAAGTTTAGGCACCTCCCTGTTGTAGAAAATGGTGAAGTTATTGCCATATTGGATATTACAAAGTGCCTCTATGATGCTATATCTCGAATGGAGAAGGC
| ||| | |||| | ||| ||| | || |||| || ||| | |||| || | ||||| || || || | || ||| || ||||| ||||| || ||||||||||||||||| |||||||| || |||| ||| |||| ||||| ||||| || ||| | || |||| |||||
--gctgtttgttctcatgtccttgcttagaaaccctgagtcaagtcttagttggatatgttcactaacatcagcttttacaatatgttctctcatattt-----tagGGAAATTTAGACACCTTCCCGTTGTAGAAAATGGTGAGGTTATTGCTATGCTGGACATTGCAAAATGCCTTTATGAAGCAATAGCAAGACTGGAAAAGGC
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G32930.1 (Glycine max), 3'ss of exon 3
--tatttatttcatttcat--atatgcacttcatttgaatgaattctttattacttattagcctaatatttgttttatggcatcttgcttgtgttggtcaacagGCAAGTTTAGGCACCTCCCTGTTGTAGAAAATGGTGAAGTTATTGCCATATTGGATATTACAAAGTGCCTCTATGATGCTATATCTCGAATGGAGAAGGC
| | |||| ||| | | | || || | ||| | | | || | || | || || ||||| | || || || | ||| || || ||||||||||||||||| |||||||||||||| ||||||||| |||||||||| | || || |||||||| ||| || | |||||||||||
tttttctattagattctgtctgtttacattttgtactaattgagacagt-ctataaaataatgcattaaatgagatatggtttattcttt---ttaactgatagGTAAATTCAGGCACCTCCCTGTTGTGGAAAATGGTGAAGTCATTGCCATACTGGATATTACCAGATGTCTTTATGATGCCATAACTAGGATGGAGAAGGC
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G16570.2 (Glycine max), 3'ss of exon 3
tatttatttcatttcatatatgcacttcatttgaatgaattctttattacttattagcctaatatttgttttatggcatcttgcttgtgttggtcaacagGCAAGTTTAGGCACCTCCCTGTTGTAGAAAATGGTGAAGTTATTGCCATATTGGATATTACAAAGTGCCTCTATGATGCTATATCTCGAATGGAGAAGGC
|| | | ||| ||| || || | |||| | | | | || | || || || || | ||| | || | ||| | ||||| |||||||||||||| |||||||||||||| |||||||| ||||||| || || || || |||||||| |||||| ||||||||| ||
ggattctctatttttatacatcttgtttgatagaatcatagtctggctggaaagtaattcattaagtgagagatataatttaactttttttaactgatagGTAGATTTAGACACCTCCCTGTTGTGGAAAATGGTGAAGTCATTGCCATGCTGGATATCACCAAATGTCTTTATGATGCCATATCTAGAATGGAGAGCGC
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G38480.1 (Glycine max), 3'ss of exon 3
tatttatttcatttcatatatgcacttcatttgaatgaattctttattacttattagcctaatatttgttttatggcatcttgcttg---tgttggtcaacagGCAAGTTTAGGCACCTCCCTGTTGTAGAAAATGGTGAAGTTATTGCCATATTGGATATTACAAAGTGCCTCTATGATGCTATATCTCGAATGGAGAAGGC
|||| ||| | | ||| || | ||| ||| | || | | | ||||| | | | || | ||| | || | ||| || || || ||||||||||| || |||||||||||||| |||||||| |||||||||| || ||||| |||||||| |||||| | ||||||| ||
tattagattc--tctgtttatacatcttgttt-aatagagtcatagtcggactggaaactaattcattaagtgagagatataatttgactttttaactgatagGTAAATTCAGACACCTCCCTGTCGTGGAAAATGGTGAAGTCATTGCCATGCTGGATATTACCAAATGCCTTTATGATGCCATATCTAGGATGGAGAGCGC
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G00560.2 (Glycine max), 3'ss of exon 3
----tatttatttcatttcatatatgcacttcatttgaatgaattctttattacttattagcctaatatttgttttatggcatcttgcttgtgttggtcaacagGCAAGTTTAGGCACCTCCCTGTTGTAGAAAATGGTGAAGTTATTGCCATATTGGATATTACAAAGTGCCTCTATGATGCTATATCTCGAATGGAGAAGGC
| | |||| ||| | | | |||| | ||| | | | || | || | | || || |||| || | | || | ||| || || ||||||||||||||||| |||||||||||||| ||||||||| ||||||| || | || || |||||||| ||| || | ||||||| |||
tatctttctattagattctgtctgtttactttgtagtaattgagacagt-ctataaagtaatccattaaatgagatatgat---ttattcattttaactgatagGTAAATTCAGGCACCTCCCTGTTGTGGAAAATGGTGAAGTGATTGCCATACTGGATATCACCAGATGTCTTTATGATGCCATAACTAGGATGGAGAGGGC
upper sequence: Vv07s0031g02750.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ18044 (Selaginella moellendorffii), 3'ss of exon 2
------------------tatttatttcatttcatatatgcacttcatttgaatgaatt---ctttattacttat---tagcctaata-tttgttttatggcatctt-------gcttgtgttggtcaacagGCAAGTTTAGGCACCTCCCTGTTGTAGAAAATGGTGAAGTTATTGCCATATTGGATATTACAAAGTGCCTCTATGATGCTATATCTCGAATGGAGAAGGC
||| || ||| ||| | | | | || | | || ||| |||| | |||| | | |||||| ||| | | ||||||||| || ||||||||||| |||||||| || ||||| |||||||||| | || | || | || || | || ||||| || | ||||| |
gtttagccaagtttcttcctttttcaccacctcaaataaacgcgagggagaagaaacttacattgcactagctatagctagctttgggctttgggctttatcatctttatgctgacttttttctgtcaacagGGAAATTTAGGCACCTGCCTGTTGTTGACAATGGACAAGTTATTGCTCTCGTGAACATGAAGAAATGTTTGTACGATGCAATTGTTACGCTGGAGTGGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attacttattagcctaatatttgttttatggcatcttgcttgtgttggtcaacagGCAAGTTTAGGCACCTCCCTGTTGTAGAAAATGGTGAAGTTATTGCCATATTGGATATTACAAAGTGCCTCTATGATGCTATATCTCGAATGGAGAAGGC
gcctaat putative branch site (score: 3)
taatatttgttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatttatttcatttcatatatgcacttcatttgaatgaattctttattacttattagcctaatatttgttttatggcatcttgcttgtgttggtcaacagGCAAGTTTAGGCACCTCCCTGTTGTAGAAAATGGTGAAGTTATTGCCATATTGGATATTACAAAGTGCCTCTATGATGCTATATCTCGAATGGAGAAGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - tatgcac
- - - - - - - - - - - - - - - - gaatgaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatggca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttgtg