Sequence
atgc intronic sequence ATGC exonic sequence...atgtaatgcctatggtagtcttttgccttttccatcattttcatttttcactttttatttttatcatcagttgatcaagcttcttgtcaatttataatagGTGTATACAGTTGGCCCTGAATATGCACATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGCGTTGTTATGAGAAACCCCGATGGGAAAGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os03g48300.1 (Oryza sativa), 3'ss of exon 8
-atgtaatgcctatggtagtcttttgccttttccatcattttcatttttcactttttatttttatcatcagttgatcaagcttcttgtcaatttataat-agGTGTATACAGTTGGCCCTGAATATGCACATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGCGTTGTTATGAGAAACCCCGATGGGAAAGAA
|| | || | || | | | | | || | ||| | |||| | | || | || | || ||| | |||| || ||||||||||| | ||||||||||||||||||| | || || || ||||||||||| ||||||||||| ||||| ||||||||||||
tttggagagcttttgcattgagtaaatcatgcagggaacatatgttccaaaaatttcacttttctggct--tccgtctaaattatcacaaaactattttcagGTTTACACAGTTGGCCCAGGATATGCACATGCTGAGGCACGTAAATCACCAGTTGTTGATGGTGTTGTTATGAGGAACCCTGATGGGAAAGAA
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 6
---------atgtaatgcctatggtagtcttt-tgccttttccatcattttcatttttcactttttatttttatcatcagttgatcaag-----cttcttgtcaatttataa-------tagGTGTATACAGTTGGCCCTGAATATGCACATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGCGTTGTTATGAGAAACCCCGATGGGAAAGAA
| | | |||| | | | | | ||||||| | | | |||| | ||| | | | || || | || || | || |||| |||||||||||||| || ||||||||||| ||||||||||||||||||||||||||||||||||| |||||||||||||| || ||||||| |||
gtttggcagttttgagatttatgttgctttctattccttttctcttaaatgtatttggaatgtttctccatatcctttagcatattagaatggtctcctagaattttcataaatgactgtagGTGTATACAGTAGGTCCTGAATATGCGCATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGTGTTGTTATGAGAAATCCTAATGGGAAGGAA
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 8
------------------atgtaatgcctatggtagtcttttgccttttccat-cattttcatttttcactttttatttttatcatcagttgatcaagcttcttgtcaatttataa------tagGTGTATACAGTTGGCCCTGAATATGCACATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGCGTTGTTATGAGAAACCCCGATGGGAAAGAA
| |||||| | || | |||| || || || |||| | | || | |||| ||| | | || || | | || |||| |||||||||||||| || ||||||||||| ||||||||||||||||||||||||||||||||||| |||||||||||||| | |||||||| |||
gtttggctgttttgagatttataatgctttc--tatttttttttctcttaaatgtatttggaatgtttgtccatatcctttagcat-attagaatggtctcttagaattttcataaatgacttagGTGTATACAGTAGGTCCTGAATATGCGCATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGTGTTGTTATGAGAAATCTTGATGGGAAGGAA
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 8
-----------------------------------------------------atgtaatgcctatggtagtcttttgccttttccatcattttcatttttcactttttatttttatcatcag-----ttgatcaagcttcttgtcaatttataatagGTGTATACAGTTGGCCCTGAATATGCACATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGCGTTGTTATGAGAAACCCCGATGGGAAAGAA
| |||| ||| | | ||| ||||| || | | || | ||||| || || | |||| | | ||| || | || ||||| ||||||||||||||||||||||| |||||||||||||||||||||||||| |||||||| ||||| |||||||| || |||||||| |||
gtttgactatgaagtttatgttgctttgtgtttattttattgtttctttatttttttaat-tatatatttgggcttttttttttcagacacatgtgatgtttctacatagtttttcacaatagaaattcttttcaaacattttgacatatgattgtagGTATATACAGTTGGCCCTGAATATGCTCATGCTGAGGCAAGGAAGTCTCCTGTGGTTGATGGTGTTGTGATGAGAAATCCTGATGGGAAGGAA
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 6
-------------------------atgtaatgcctatggtagtcttttgccttttccatcattttcatttttcacttttt------------atttttatcatcagttgatca------agcttcttgtcaattt-----------ataatagGTGTATACAGTTGGCCCTGAATATGCACATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGCGTTGTTATGAGAAACCCCGATGGGAAAGAA
||| | | | | | ||| |||| || || | |||| | ||||| || ||| | | |||| ||| | || || |||| | || ||||| ||||||||||||||||||||||| |||||||||||||||||||||||||| |||||||| ||||| |||||||| | |||||||| |||
gtttggctgtgaagtttatgttgctttgtgtttgttttattgtttctttatttttttaattatatatatttgggattttttcagacttatgtgatgtttctaaatagtttttcacaacagaaattattttcaacatttcaacatatgattgtagGTATATACAGTTGGCCCTGAATATGCTCATGCTGAGGCAAGGAAGTCTCCTGTGGTTGATGGTGTTGTGATGAGAAATACTGATGGGAAGGAA
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT3G01310.2 (Arabidopsis thaliana), 3'ss of exon 9
---atgtaatgcctatggtagtcttttgccttttccatcatt-ttcatttttcactttttattttta-tcatcagttgatcaagcttcttgtcaatttataatagGTGTATACAGTTGGCCCTGAATATGCACATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGCGTTGTTATGAGAAACCCCGATGGGAAAGAA
|| | || | || || || || | | ||| | || | | | | | ||| ||| ||| |||| || || | |||| |||||||| || |||||||| ||||||||||| ||||| ||||| |||||||||||||| ||||||||||| || | |||||||| |||
atgctgcatggctttccacctgctgatgtagcttttattgctgcttgtttctgtctggtgagcatgagttctcaactga-caatcttcctggtaaac----acagGTCTATACAGTGGGTCCTGAATACGCACATGCTGAAGCAAGAAAGTCACCTGTTGTTGATGGTGTTGTTATGAGGAATACAGATGGGAAGGAA
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G15070.1 (Arabidopsis thaliana), 3'ss of exon 9
-atgtaa---tgcctatggtagtcttttgccttttccatcattttcatttttcactttttatttttatcatcagttgatcaagcttcttgtcaatttataatagGTGTATACAGTTGGCCCTGAATATGCACATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGCGTTGTTATGAGAAACCCCGATGGGAAAGAA
|||| | || |||| |||| || | || || || | || | || ||| | | |||| | ||| | | | | |||| || || || || || ||||||||||| ||||| ||||| || || |||||||||||||| || || |||||||| || |||||||| |||
gtcgtaaggctatctggaatagtttttt-ttttctggattatgttt-tggttgaagcttggctttgacgagtttttgactgacagtctaccc--tgaaatacagGTCTACACTGTGGGTCCCGAATATGCACACGCTGAAGCAAGAAAATCACCTGTTGTTGATGGTGTAGTAATGAGAAATCCAGATGGGAAGGAA
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: PP1S112_67V6.1 (Physcomitrella patens), 3'ss of exon 8
--atgtaatgcctatggta-gtcttttgccttttccatcattttcatttttcactttttattt----ttatcatcagttgatcaagcttcttgtcaatttataatagGTGTATACAGTTGGCCCTGAATATGCACATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGCGTTGTTATGAGAAACCCCGATGGGAAAGAA
|| | | || ||| | | |||| | | | ||||||| | | | ||| | || | | | |||||||| || ||||||||||||| || || |||||||| ||||| || || || |||||||||||||| ||||| || || ||||||| | ||||| || ||
acatctgttagctttggcaaggactttggtcgattcgcctttttcatgtgtgaatttcaagacgagattgttgccgacgtggtatgcttcttgc------atg-cagGTGTATACAGTGGGGCCAGAATATGCTCATGCAGAAGCTAGAAAGTCTCCTGTTGTGGATGGTGTAGTAATGAGAAGTGCTGATGGAAAGGAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: EFJ19878 (Selaginella moellendorffii), 3'ss of exon 8
atgtaatgcctatggtagtcttttgccttttccatcattttcatttttcactttttatttttatcatcagttgatcaagcttcttgtcaatttataatagGTGTATACAGTTGGCCCTGAATATGCACATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGCGTTGTTATGAGAAACCCCGATGGGAAAGAA
| || | || || | | || | || |||| | || | |||| || || ||||| || |||||||| |||||||||||| | || || ||||||||||| || |||||| |||||| |||||||| |||||
-------------------------------------------gtagacaactcaacttcttgttcttagcagcc---gcctcttctgaact----gcagGTATACACTGTTGGACCAGAATATGCTCATGCTGAGGCACGAAAATCACCTGTTGTTGACGGGGTTGTTTTGAGAAGTCCCGATGGAAAAGAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: EFJ07403 (Selaginella moellendorffii), 3'ss of exon 8
atgtaatgcctatggtagtcttttgccttttccatcattttcatttttcactttttatttttatcatcagttgatcaagcttcttgtcaatttataatagGTGTATACAGTTGGCCCTGAATATGCACATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGCGTTGTTATGAGAAACCCCGATGGGAAAGAA
| || | || || | | || | || |||| | || | |||| || || ||||| || |||||||| |||||||||||| | || || ||||||||||| || |||||| |||||| || ||||| |||||
-------------------------------------------gtagacaactcaacttcttgttcttagcagtc---gcctcttctgaact----gcagGTATACACTGTTGGACCAGAATATGCTCATGCTGAGGCACGAAAATCACCTGTTGTTGACGGGGTTGTTTTGAGAAGTCCTGATGGAAAAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcactttttatttttatcatcagttgatcaagcttcttgtcaatttataatagGTGTATACAGTTGGCCCTGAATATGCACATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGCGTTGTTATGAGAAACCCCGATGGGAAAGAA
agttgat putative branch site (score: 5)
tttttatttttatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtaatgcctatggtagtcttttgccttttccatcattttcatttttcactttttatttttatcatcagttgatcaagcttcttgtcaatttataatagGTGTATACAGTTGGCCCTGAATATGCACATGCTGAGGCAAGGAAGTCTCCTGTTGTTGATGGCGTTGTTATGAGAAACCCCGATGGGAAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- -taatgcc
- - - - - - - - - - - -tgccttt
- - - - - - - - - - - - - - - -ccatcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcaagct