Sequence
atgc intronic sequence ATGC exonic sequence...catcttatatccttgacttctatgttgatcagctagtgtgttgctcctggtttactattattggaaagcaattttatggcaaactgctactgtactgtagGTTGTGCGTATTTGGGACCCAAGAACTGGTTCAAAGACTATGAAGCTCAGAGGGCATACAGATAACATTAGGGCTCTGCTTCTGGATTCTACTGGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G40440.4 (Glycine max), 3'ss of exon 6
--------------------------------------------------catcttatatccttgacttctatgttgatcagctagtgtgttgctcctggtttactattattggaaagcaattttatggcaaactgctactgtactgtagGTTGTGCGTATTTGGGACCCAAGAACTGGTTCAAAGACTATGAAGCTCAGAGGGCATACAGATAACATTAGGGCTCTGCTTCTGGATTCTACTGGCAG
||| |||| || || || | |||| | | || ||| || ||| | || | | | | || | |||||||||||| | |||||| ||||| | || ||||||||| | ||||| |||||||||||||||||||| |||||||||||||||||||||| ||||||
gtacaatatggcatttgctctgacttgtcgaggcttctttacctttgaaacattagatatggtttgtttgcgctttagt-agcttgaattttatgggatgttgtctcttaccatggtttatttcttcaatttatt--tggggttcactagGTTGTGCGTGTCTGGGACACAAGATCAGGATCAAAGACTCTAAAGCTAAGAGGGCATACAGATAACATCAGGGCTCTGCTTCTGGATTCTAGTGGCAG
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA19G43070.1 (Glycine max), 3'ss of exon 6
catcttatatccttgacttctatgttgatcagctagtgtgttgctcctggtttactattattggaaagcaattttatggcaaactgct--actgtactgtagGTTGTGCGTATTTGGGACCCAAGAACTGGTTCAAAGACTATGAAGCTCAGAGGGCATACAGATAACATTAGGGCTCTGCTTCTGGATTCTACTGGCAG
| |||| | || || ||| ||| || | ||| | | | ||| | || | | || | | || | |||||||||||| | |||||| ||||| | || ||||||||| | ||||| |||||||||||||||||||| |||||||||||||||||||||| ||||||
-acagtatagatgttttttgcttgc-gatgtagtagcttgaattttatgggatgttgtctctggccatggtttatttcttcaattttttgggggttcactagGTTGTGCGTGTCTGGGACGCAAGATCAGGATCAAAGACTCTAAAGCTAAGAGGGCATACAGATAACATCAGGGCTCTGCTTCTGGATTCTAGTGGCAG
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA10G30050.1 (Glycine max), 3'ss of exon 5
------------------------------------------------------------------------------------catcttatatcct-tgacttctatgttgatcagctagtgtgttgctcctggtttactattattggaaagcaattttatggcaaactgctactgtactgtagGTTGTGCGTATTTGGGACCCAAGAACTGGTTCAAAGACTATGAAGCTCAGAGGGCATACAGATAACATTAGGGCTCTGCTTCTGGATTCTACTGGCAG
| |||||| | | | | | || || |||||| || | ||| || | | || |||| || | | | | | ||||| ||||||||||||| || ||| |||| ||||||||| ||||||| | |||||||||||||||||| |||||| | ||||||||||||||||||||
gtaaaatgtggcattcttgttcagatttatgttctcccgtgtgtggcttctgctagctattacccttggaatataagaagcatttactttatattatattaaattgaatttcattagctagatagtggggt---gttatctctacctagagcattattt-atttttatttattttttcttttaagGTTTTGCGTATTTGGGATCCGAGATCTGGATCAAAGACTTTGAAGCTAAAAGGGCATACAGATAACATCAGGGCTTTACTTCTGGATTCTACTGGCAG
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA19G42990.1 (Glycine max), 3'ss of exon 6
-------------------------catcttatatccttgacttctatgttgatc-agctagtgtgttgctcc----tggtttactattattggaaagcaatttt-----atggcaaactgct---actgtactg--------tagGTTGTGCGTATTTGGGACCCAAGAACTGGTTCAAAGACTATGAAGCTCAGAGGGCATACAGATAACATTAGGGCTCTGCTTCTGGATTCTACTGGCAG
|| | ||| || | | | || || | |||| | | | || | | |||| | | | | ||||| | | || ||| | || |||||||||||| | ||||| ||||| | || ||||||||| | ||||| ||||| |||||||||||||| |||||||||||||||||||||| ||||||
gtacaatatggcatatgctctgaattattgaggcttctttacatttgaaacagtagagagggtttcttgcgctgtagtagcttgaaagttttgggatgttgtctctgaccatggcttatttcttcaacttttttggggttcactagGTTGTGCGTGTCTGGGATGCAAGATCAGGATCAAAGACTCTAAAGCTAAGAGGACATACAGATAACATCAGGGCTCTGCTTCTGGATTCTAGTGGCAG
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA03G40360.1 (Glycine max), 3'ss of exon 6
-----------------------------------catcttatatccttgacttctatgttgatcagctagtgtg-ttgctcc----tggtttactattattggaaagcaattt-----tatggcaaactgctact-----------gtactgtagGTTGTGCGTATTTGGGACCCAAGAACTGGTTCAAAGACTATGAAGCTCAGAGGGCATACAGATAACATTAGGGCTCTGCTTCTGGATTCTACTGGCAG
| | || || || | | | || | || || |||| | | | || || |||| | | | | |||| ||| || | || | |||||||||||| | ||||| |||| | || ||||||||| | ||||| ||||| |||||||||||||| |||||||||||||||||||||| ||||||
gtacaatatggcatatgaatgaaagtgaaacaattcttgaggcttctttacatttgaagcagtagagatggtttgcttgcactgtagtagcttgaattttttgggatgttgtctctgaccatggtttacttcttcattttttttggggttcactagGTTGTGCGTGTCTGGGATGCAAGGTCAGGATCAAAGACTCTAAAGCTTAGAGGACATACAGATAACATCAGGGCTCTGCTTCTGGATTCTAGTGGCAG
upper sequence: Vv14s0030g01350.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G05090.1 (Arabidopsis thaliana), 3'ss of exon 6
--catcttatatccttgacttctatgttgatcagctagtgtgttgctcctggtttactattattggaaagcaattttatgg---caaactgctactg--tactgtagGTTGTGCGTATTTGGGACCCAAGAACTGGTTCAAAGACTATGAAGCTCAGAGGGCATACAGATAACATTAGGGCTCTGCTTCTGGATTCTACTGGCAG
|| || || | | || | | | || | | | || | | | || | || |||| | || | | | || || ||||| | ||| | |||||||| ||||| |||||||||| ||||||||| ||||||||||||||||| |||| | ||||||||||| || ||||||||
gtattcgtacattcccaagttgcagagagtatacctga-gaacaacaac-ggataatttttttgggtttttgatttcttaaaactaagttttttttatttattgcagGTTTTACGTGTCTGGGACCCTAGAACCGGTTCAAAGAGTATGAAGCTGAGAGGGCATACAGATAATGTTAGAGTGCTGCTTCTGGACTCAACTGGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cctggtttactattattggaaagcaattttatggcaaactgctactgtactgtagGTTGTGCGTATTTGGGACCCAAGAACTGGTTCAAAGACTATGAAGCTCAGAGGGCATACAGATAACATTAGGGCTCTGCTTCTGGATTCTACTGGCAG
tttactattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catcttatatccttgacttctatgttgatcagctagtgtgttgctcctggtttactattattggaaagcaattttatggcaaactgctactgtactgtagGTTGTGCGTATTTGGGACCCAAGAACTGGTTCAAAGACTATGAAGCTCAGAGGGCATACAGATAACATTAGGGCTCTGCTTCTGGATTCTACTGGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaagcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tatggca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgctac