Sequence
atgc intronic sequence ATGC exonic sequence...ggctaaattataaagaatgcctaaacaatgtaggagtcacatgtgctttgcacttctggcagttttgttgccttcatgtgttcacgttgttcttgtgtagGTTATAGTCTCTGCGAGGAAGCCAGAGTTCTTCCAAATGTCACACCCATTGTATGAGGTGGTGACAGATGAGGGTCTAATGCGTCCATGCTTCAAGGCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os01g14810.3 (Oryza sativa), 3'ss of exon 10
------ggctaaattataaagaat-gcctaaacaatgtaggagtcacatgtgctttgcacttctggcagttttgttgccttcatgtgttcacgttgttcttg-tgtagGTTATAGTCTCTGCGAGGAAGCCAGAGTTCTTCCAAATGTCACACCCATTGTATGAGGTGGTGACAGATGAGGGTCTAATGCGTCCATGCTTCAAGGCTT
|| || | | | ||| | | | || | ||| | ||| | ||| | ||| || | || ||||| ||||||||||||||||||| |||||||||||||| |||||||| || || || || || ||||| || ||| |||| || |||||||||| || || || |||
gtgagtaatcaagttgctggttctagattgaactgtttgtcattcgttgcttgcctgccatgctgaaaactttactaagatcacttgat----ttattcttactgtagGTTATAGTCTCTGCAAGGAAGCCAGAGTTTTTCCAAATCTCTCATCCGTTATACGAGGTTGTAACAAATGATGGATTAATGCGTCCCTGTTTTAAAGCTA
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G044819_T02 (Zea mays), 3'ss of exon 9
ggctaaattataaagaatgcctaa--acaatgtaggagtcacatgtgctttgcacttctggca------gttttgttgccttcat--gtgttcac--gttgttcttg-tgtagGTTATAGTCTCTGCGAGGAAGCCAGAGTTCTTCCAAATGTCACACCCATTGTATGAGGTGGTGACAGATGAGGGTCTAATGCGTCCATGCTTCAAGGCTT
||| || | | | ||| | || | | | || | || || ||| | | || || |||||| | | || || || || | ||||||||||||||||| ||||||||||| || ||||| | ||||| |||||||||||||| || |||||||| || || |||||||| || || || |
--gtaagtttttatctctcccttataccagttttgtagaagtgtctgtttggcagtcattgcttacaacacactggaaacttcattaatatccattaattctttttactatagGTTATAGTCTCTGCAAGGAAGCCAGAATTTTTCCAGCTTTCACATCCATTGTATGAGGTTGTAACAGATGATGGACTGATGCGTCCCTGTTTTAAAGTAA
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA15G21240.1 (Glycine max), 3'ss of exon 9
-------------------ggctaaattataaag--aatgcctaaacaatgtaggagtca----catgtgctttgcacttctggcagttttgttgcc-------ttcatgtgttcacgttgttcttgt------gtagGTTATAGTCTCTGCGAGGAAGCCAGAGTTCTTCCAAATGTCACACCCATTGTATGAGGTGGTGACAGATGAGGGTCTAATGCGTCCATGCTTCAAGGCTT
|| | ||| ||| | || | | || |||| | | | |||| | ||| |||||| | || || | || | ||| || |||||| || ||||| || | || ||||| |||||||||||||||||||| ||||||||||||||||||| ||||| || |||||||||||||| ||||||
gtaagttcttgtagataatcaatacaatatgaagttatcctcttgatagtggaggaatgaaaaatacatgctattattctctttactttttgtgaaataagcaatgcacaaattgatgtggctctcgttcatgagtagGTAATTGTCTCGGCAAACAAACCAGAATTCTTCCAAATGTCACACCCCATGTATGAGGTGGTGACAGAAGAGGGCCTGATGCGTCCATGCTTTAAGGCTC
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA13G17950.1 (Glycine max), 3'ss of exon 10
----------------------------------------------------------------------ggctaaattataaagaatgcctaaacaatgtaggagtcacatgtgctttgcacttctggcagttttg---ttgccttc----atgtgttcacg---ttgttcttgtgtagGTTATAGTCTCTGCGAGGAAGCCAGAGTTCTTCCAAATGTCACACCCATTGTATGAGGTGGTGACAGATGAGGGTCTAATGCGTCCATGCTTCAAGGCTT
|| ||| | | | | | || || | | | | | || | || || | ||| | || || | |||||| || ||||| |||||||| || || || |||||||||||||||| |||||| || ||||||| ||||| |||| ||||| || ||||||||||||||||| |||
gtaagttcatgtaaattatttcttccatatttttattcttgaagaaaattaatgagacattctcgacattggaggaataaaatacactatctccacgtcattatttttccctaaattaacaaccttatcttattatgaaataaactttggataaatggacatggttttgttcatggatagGTAATAGTCTCAGCAAGAAAACCAGAGTTCTTCCAAACGTCACATCCCATGTATGAAGTGGTCACAGGCGAGGGCCTTATGCGTCCATGCTTCAAAGCTC
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA17G04580.1 (Glycine max), 3'ss of exon 10
----------------------------------------------------------------------ggctaaattataaagaatgcctaaacaatgtag---------gagtcacatgtgctttgcacttctggcagttttgttgccttcatgtgttcacgttgttcttgtgtagGTTATAGTCTCTGCGAGGAAGCCAGAGTTCTTCCAAATGTCACACCCATTGTATGAGGTGGTGACAGATGAGGGTCTAATGCGTCCATGCTTCAAGGCTT
|| ||| | | | | | ||| || | | | | | || || | | |||| | ||| | || ||| || ||||| |||||||| || || || |||||||||||||||| ||||| || ||||||| ||||| |||| ||||| || |||||||||||||||| |||
gtaagttcatgtaaattatttcttccatatttttattcttgaggaaaattactgaaacattctcgacattggaggaatgaaatacactatctacacgtcattattttgccctaaattgacaaccttatcttattatgaaataaattttgcataaatggatatggttttttcatggatagGTAATAGTCTCAGCAAGAAAACCAGAGTTCTTCCAAACATCACATCCCATGTATGAAGTGGTCACAGGCGAGGGCCTTCTGCGTCCATGCTTCAAAGCTC
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT5G48960.1 (Arabidopsis thaliana), 3'ss of exon 10
--ggctaaattataaagaatgcctaaacaatg--taggagtcacatgtgctttgcacttctggcagttttgttgccttcatgtgttcacgt---tgttcttgtgtagGTTATAGTCTCTGCGAGGAAGCCAGAGTTCTTCCAAATGTCACACCCATTGTATGAGGTGGTGACAGATGAGGGTCTAATGCGTCCATGCTTCAAGGCTT
| ||| || | || | || | | || ||| || | | | || | || ||| || | |||| ||||| ||||| ||||||||||| |||||||||||||| ||||| ||||| | |||||||| ||||| | |||||| | |||||||||||||||||||||
gtgagcaaacgtaaatttgtttctgcattttgattgtaaatctgttgtttttcagagagtagtttgcattag-actttactgtttttgaattcatgtttccacatagGTGATAGTTTCTGCGAGGAAACCAGAGTTCTTCCAGATGTCGCACCCTCTATATGAGGTTGTGACTGGAGAGGGTTTGATGCGTCCATGCTTCAAGGCTG
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: EFJ30141 (Selaginella moellendorffii), 3'ss of exon 9
ggctaaattataaagaatgcctaaacaatgtaggagtcacatgtgctttgcacttctggcagttttgttgccttcatgtgttcacgttgttcttgtgtagGTTATAGTCTCTGCGAGGAAGCCAGAGTTCTTCCAAATGTCACACCCATTGTATGAGGTGGTGACAGATGAGGGTCTAATGCGTCCATGCTTCAAGGCTT
|| | || | | | ||| || | || | | | ||| | |||| || || || ||||| ||||||||||| |||||||||||||| || ||||| ||| | || || | || || | ||||||||||| ||||| ||
------------------------------------------gtaacatacaat----gtaccttttttattctgat-ttctgtccttgggagcttacagGTGATTGTGTCAGCGAGAAAGCCAGAGTTTTTCCAAATGTCACATCCCTTGTACGAGATCGTTACCAAGGATGGCTTGATGCGTCCATGTTTCAAAGCAA
upper sequence: Vv05s0020g00880.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: EFJ08324 (Selaginella moellendorffii), 3'ss of exon 9
ggctaaattataaagaatgcctaaacaatgtaggagtcacatgtgctttgcacttctggcagttttgttgccttcatgtgttcacgttgttcttgtgtagGTTATAGTCTCTGCGAGGAAGCCAGAGTTCTTCCAAATGTCACACCCATTGTATGAGGTGGTGACAGATGAGGGTCTAATGCGTCCATGCTTCAAGGCTT
|| | || | | | ||| || | || | | | ||| | |||| || || || ||||| ||||||||||| |||||||||||||| || ||||| ||| | || || | || || | ||||||||||| ||||| ||
------------------------------------------gtaacatacaat----gtaccttttttattctgat-ttctgtccttggaagcttacagGTGATTGTGTCCGCGAGAAAGCCAGAGTTTTTCCAAATGTCACATCCCTTGTACGAGATCGTTACCAAGGATGGCTTGATGCGTCCATGTTTCAAAGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttgcacttctggcagttttgttgccttcatgtgttcacgttgttcttgtgtagGTTATAGTCTCTGCGAGGAAGCCAGAGTTCTTCCAAATGTCACACCCATTGTATGAGGTGGTGACAGATGAGGGTCTAATGCGTCCATGCTTCAAGGCTT
ttgttctt CT-rich tract
ttttgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggctaaattataaagaatgcctaaacaatgtaggagtcacatgtgctttgcacttctggcagttttgttgccttcatgtgttcacgttgttcttgtgtagGTTATAGTCTCTGCGAGGAAGCCAGAGTTCTTCCAAATGTCACACCCATTGTATGAGGTGGTGACAGATGAGGGTCTAATGCGTCCATGCTTCAAGGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - gaatgcc
- - - - - - - - - - - aaacaat
- - - - - - - - - - - - - - - - - - tcacatg
- - - - - - - - - - - - - - - - - - - - - -tgctttg
- - - - - - - - - - - - - - - - - - - - - - - - - - -ttctggc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtgttc