Sequence
atgc intronic sequence ATGC exonic sequence...gtctataaatttaaaagttgaatgaactccatttgaaatctgggcctaaattagtaaagaaattttaaattgcttttgtttgtgacttttccactgctagGTATGATGACACAAACCCTGAAGCTGAAAAGAAAGAATATATTGATCATATTGACGAAATTGTCCGGTGGATGGGTTGGGAACCTTTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os05g08990.1 (Oryza sativa), 3'ss of exon 10
-------------------gtctataaatttaaaagttgaatgaactccatttgaaatctgggcctaaattagtaaagaaattttaaattgc------ttttg--tttgtgacttttccactgctagGTATGATGACACAAACCCTGAAGCTGAAAAGAAAGAATATATTGATCATATTGACGAAATTGTCCGGTGGATGGGTTGGGAACCTTTCAAG---------
||| | ||| | | || |||||| | | || || || | ||||| | || | | | | | | |||| |||||| ||||||||||| || || |||||||||||||| ||||| ||| | ||||||||||| |||||||| ||||| |||| ||
gtacgaaggaatagttagatgttatggttccaaaggagccttcaagtccattgatttgcccttttcttccttatatggacatactgcattgcaaaacatgctgacatgattaatatctgaacaacagGTTTGATGATACAAACCCTGAGGCGGAGAAGAAAGAATATATAGATCACATTCAAGAAATTGTCCGATGGATGGGCTGGGAGCCTTATAAAGTTACCTAT
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: LOC_Os01g09000.1 (Oryza sativa), 3'ss of exon 10
gtctataaattta-aaagttgaatgaactccatttgaaatctgggcctaaattagtaaagaaat-tttaaattgcttttgtttgtgacttttccactgctagGTATGATGACACAAACCCTGAAGCTGAAAAGAAAGAATATATTGATCATATTGACGAAATTGTCCGGTGGATGGGTTGGGAACCTTTCAAG---------
| || || | | | | | | | | || || | | | | | | || | | | || | ||| | | | | | |||| |||||||||||| || ||||| ||||||||||| |||||||| || ||| | ||||| || | |||||||| ||||| || | |||
-ttaatttgttcagagaactttaaaatccttagctgct-tcagttcatttgctttcatgggaacatgtgtactgataatgtctatatatatcttaacaacagGTTTGATGACACAAATCCAGAAGCCGAAAAGAAAGAGTATATTGACCACATTCAGGAAATCGTACACTGGATGGGATGGGAGCCCTACAAAGTTACATAT
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G048012_T01 (Zea mays), 3'ss of exon 9
--gtctataaatttaaaagttgaatgaactccatttgaaatctgggccta-aattagtaaagaaattttaaattgcttttgtttgtgacttttccactgctagGTATGATGACACAAACCCTGAAGCTGAAAAGAAAGAATATATTGATCATATTGACGAAATTGTCCGGTGGATGGGTTGGGAACCTTTCAAG---------
|| | | | | | || ||||| | || | |||| | || | || | ||||| ||| || | || | |||| ||| |||||||| || |||||||||||||||||||| || ||||| ||| | |||||||||| |||||||| |||||||| | |||
attgctgtgagacttgtgctcagttttgcttgatttgttttaaggcattgtaattgcttcagctgatc--aact-cttttttttttgtttatttgaacaacagGTTTGACGACACAAATCCGGAAGCTGAAAAGAAAGAATACATAGATCACATTCAAGAAATTGTCCATTGGATGGGATGGGAACCCTACAAAGTAACATAC
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM2G032049_T01 (Zea mays), 3'ss of exon 10
gtctataaatttaaaagttg-aatgaactccatttgaaatctgggcctaaattagtaaagaaattttaaattgcttttgtt----tgtgacttttccactgctagGTATGATGACACAAACCCTGAAGCTGAAAAGAAAGAATATATTGATCATATTGACGAAATTGTCCGGTGGATGGGTTGGGAACCTTTCAAG---------
|| | | | | ||| | | |||| | | ||| | | | || | | ||| || | || | || | | || | |||||||||||| || |||||||||||||||||||| || ||||| ||| | ||||| |||| |||||||| ||||| || | |||
--acattgctgtgagacttgtggtttgttttgcttga---tttgttttaagacattgtaattgcttcagttctttttctttaccatttgtttatttgaataacagATTTGATGACACAAATCCAGAAGCTGAAAAGAAAGAATACATAGATCACATTCAGGAAATCGTCCATTGGATGGGATGGGAGCCCTACAAAGTAACATAC
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA10G41920.2 (Glycine max), 3'ss of exon 10
-gtctataaatttaaaagttgaatgaac-tccatttgaaatctgggcctaaattagtaaagaaattttaaattgcttttgtttgtgacttttc-cactgctagGTATGATGACACAAACCCTGAAGCTGAAAAGAAAGAATATATTGATCATATTGACGAAATTGTCCGGTGGATGGGTTGGGAACCTTTCAAG
| | | |||||| | || | | | |||| ||| | || | || | | || ||| | ||| || ||| | |||| | ||||||||||| ||||| |||||||| ||||||||||| ||||||||||| ||||| |||||||| | ||||||||||||| |||| ||||||
aatttctg---ttaaaattcctataagccttcattagaactttgtaattgaacatgcactataactttctttgttccaagttgatggcttgtggcacttccagGTATGATGATACAAATCCTGAAGCAGAAAAGAAAGAGTATATTGATCACATTGAAGAAATTGTTCAGTGGATGGGTTGGAAACCATTCAAG
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT1G25350.2 (Arabidopsis thaliana), 3'ss of exon 10
---------------gtctataaatttaaaagttgaatgaactccatttgaaatctgggcctaaattagtaaagaaattttaaattgcttttgtttgtgacttttccactgctagGTATGATGACACAAACCCTGAAGCTGAAAAGAAAGAATATATTGATCATATTGACGAAATTGTCCGGTGGATGGGTTGGGAACCTTTCAAG
| | | || | | | | || || | || | | || || | | | | ||| | | ||||||||||| ||||| || || || |||||| |||| |||||| |||||||||| |||||||| |||||||||||||||||| ||||||
gtaaaaaaagtttggttgcttttacttgagtttcatacatctttacctttctataacaatccttgtttcttctgtaagcacaatgttcaatattccttgaaaatctggttttcagGTATGATGATACAAATCCAGAGGCAGAAAAGGAAGAGTATATTAATCATATTGAAGAAATTGTTAAGTGGATGGGTTGGGAACCCTTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctaaattagtaaagaaattttaaattgcttttgtttgtgacttttccactgctagGTATGATGACACAAACCCTGAAGCTGAAAAGAAAGAATATATTGATCATATTGACGAAATTGTCCGGTGGATGGGTTGGGAACCTTTCAAG
gcctaaa putative branch site (score: 3)
cttttccact putative PPT
ttagtaaagaaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctataaatttaaaagttgaatgaactccatttgaaatctgggcctaaattagtaaagaaattttaaattgcttttgtttgtgacttttccactgctagGTATGATGACACAAACCCTGAAGCTGAAAAGAAAGAATATATTGATCATATTGACGAAATTGTCCGGTGGATGGGTTGGGAACCTTTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - aactcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - -aaagaaa