Sequence
atgc intronic sequence ATGC exonic sequence...ttttccaattttgatcactatactgttctgatcctatatcaaatattgctgttagtgttggatttctgagtgattttgcatttttctccccttcctttagGTTCCATTTTCTAATATTGTGTACATTGAGCACACTGATTTTCGGATGAAAGATTCGAAAGATTACTATGGGCTTGCTCCTGGTAAATCTGTCCTGCTCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: LOC_Os01g09000.1 (Oryza sativa), 3'ss of exon 17
-------------------------ttttccaattttgatcactatactgt---tctgatcctatatcaaatattgctgttagtgttggatttctgag-------tgattttgcatttttctccccttcctttagGTTCCATTTTCTAATATTGTGTACATTGAGCACACTGATTTTCGGATGAAAGATTCGAAAGATTACTATGGGCTTGCTCCTGGTAAATCTGTCCTGCTCA
| || | || | || || | || | ||| ||| | | | ||| | ||||| | || ||| | | | || ||||||| || || | || || ||||| || | ||||||||||| | || || |||||||||||||| ||||| |||||||||||||||| |||||| |
gtgtctatcatactcactatatgatatacgaaaaataaatgatgatgctatggatcaacttgcttatgaaacaattgtaggctcattgtctctctgaacacaatttaccttcatattgaattacatgttctacagGTTCCTTTCTCAAGAATCGTTTACATCGAAAAAACTGATTTTCGTCTAAAGGACTCGAAAGATTACTACGGGCTAGCTCCTGGTAAATCTGCCCTGCTAA
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: LOC_Os05g08990.1 (Oryza sativa), 3'ss of exon 17
----------------------------------------------------------ttttccaattttgatcactatactgttctgatcctatatcaaatattgctgttagtgttggatt----tctgagtgattttgcatttttctccccttcctttagGTTCCATTTTCTAATATTGTGTACATTGAGCACACTGATTTTCGGATGAAAGATTCGAAAGATTACTATGGGCTTGCTCCTGGTAAATCTGTCCTGCTCA
|| | | | | | | ||||| || | || | | | | | | | | | ||||| || | | | | | ||||||||||| || | | ||| ||||| ||||| |||||||||| | || ||||| |||||||| ||||||||||||||||||||| | || || || |
gtaattcttatgtctgaatgacttaatcattttgagaattaaaaatctggtttagtggttacagagtccctttggttctgcacttctgctcaaagattagacacattgagcaatataagttcatcacttctctgattctggaactgtggtcatccc---tagGTTCCATTCTCAAGAACTGTCTACATCGAGCAGTCTGATTTTCGTGTAAAGGATTCAAAAGATTATTATGGGCTTGCTCCTGGTAAAACAGTACTACTAA
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GRMZM2G032049_T01 (Zea mays), 3'ss of exon 17
------------------------------------ttttccaattttgatcactata------ctgttctgatc-ctatatcaaatattgctgttagtgttggat-ttctgagtgattttgcatttt---tctccccttcctttagGTTCCATTTTCTAATATTGTGTACATTGAGCACACTGATTTTCGGATGAAAGATTCGAAAGATTACTATGGGCTTGCTCCTGGTAAATCTGTCCTGCTCA
| ||| || | || | ||| | | || || | | || | | || ||| | ||| | | | | | | || | ||||||| || || | | ||| ||||||||| | ||||||||||| | || || || ||||| ||||||||||| || ||||||||||||||| |||| |
gtacctctcatttccggtgtacaacacaagaacaacatcatcaacttaaaatgctgtgtgaaatctgcaataaggacttcataagttcactctatggacatcaaatcttcatactgaatagatgtatcaaattttcttttattgcagGTTCCGTTCTCAAGAACTGTCTACATTGAGAAAACTGATTTTCGCCTAAAGGACTCAAAAGACTACTATGGGCTAGCCCCTGGTAAATCTGTCATGCTAA
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GRMZM2G048012_T01 (Zea mays), 3'ss of exon 16
--ttttccaattttgatcactatactgttctgatcctatatcaaatattgctgttagtgttggatttctgagtgattttgcatttttc--tccccttcctttagGTTCCATTTTCTAATATTGTGTACATTGAGCACACTGATTTTCGGATGAAAGATTCGAAAGATTACTATGGGCTTGCTCCTGGTAAATCTGTCCTGCTCA
|| | ||| || || ||| | | || || | | ||| | || | | || | || | ||| | || |||| || || | | ||| ||||||||| | ||||||||||| | || || || ||||| ||||||||||| || ||||||||||||||| |||| |
cgttcccaaatgctgtgtgaaat-ctgcaataaggagttaataagt-tcactg--gacatcaaatcttcatactgaatagctgtattaaattttcttattgcagCTTCCGTTCTCAAGAACTGTCTACATTGAGAAAACTGATTTTCGCCTTAAGGACTCAAAAGACTACTATGGGCTGGCCCCTGGTAAATCTGTCATGCTAA
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA20G25120.2 (Glycine max), 3'ss of exon 18
ttttccaattttgatcactatactgttctgatcctatatcaaatattgctgttagtgttggatttctgag----tgattttgcatttttctcccctt-cctttagGTTCCATTTTCTAATATTGTGTACATTGAGCACACTGATTTTCGGATGAAAGATTCGAAAGATTACTATGGGCTTGCTCCTGGTAAATCTGTCCTGCTCA
| | | || | | ||| || | | | | | ||| || || || ||| || ||| | | ||||||| || || | | || |||| |||||||||| ||| |||| || ||||| || | || || |||||| ||||||| |||||||| ||||| ||||||||||| |||||||| | ||||
---tgtattgttaagctttatcatggtattacc--acttcatatgatgttggtaggcttatgtttgtatgcttctgattttatgttgttatgcatttgttcttagATTCCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAAGATTCAAAAGATTATTATGGCCTTGCTCCTGGGAAATCTGTGATACTCA
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA10G41920.2 (Glycine max), 3'ss of exon 18
----------------------------------------------------------------------------ttttccaattttgatcactatactgttctgatcctatatcaa------atattgctgttagtgttggatttctgagtgattttgcatttttct----ccccttcctttagGTTCCATTTTCTAATATTGTGTACATTGAGCACACTGATTTTCGGATGAAAGATTCGAAAGATTACTATGGGCTTGCTCCTGGTAAATCTGTCCTGCTCA
| |||| ||| || |||| || | || ||| || || || || ||| || ||| | ||| || ||||| | | | |||| || ||||||| ||| |||| || ||||| || | || || |||||| ||||||| |||||||| ||||| ||||||||||| |||||||| | ||||
gtgaaattgaacttgtgaaaactggtatctttaggcagtgttatggttttaggaaatcttgttgcagaaactagttgtacccaacttttgtc-ctatgatgattcaatatcttattaacttcatatgatgttggtaggcttatgtttgtatgtgtcttattttttttgtcatgcatttgttcttagATTTCATTTTCCAATGTTGTATATATTGAACATTCGGACTTCCGGATGCAAGATTCAAAAGATTATTATGGCCTTGCTCCTGGGAAATCTGTGATACTCA
upper sequence: Vv01s0011g03740.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: AT1G25350.2 (Arabidopsis thaliana), 3'ss of exon 17
ttttccaattttgatcactatactgttctgatcctatatcaaatattgctgttagtgttggatttctgagtgattttgcatttttctccccttcctttagGTTCCATTTTCTAATATTGTGTACATTGAGCACACTGATTTTCGGATGAAAGATTCGAAAGATTACTATGGGCTTGCTCCTGGTAAATCTGTCCTGCTCA
|| |||| | | ||| | | || || ||| ||| | || |||||| | | | ||||| || || |||| |||| |||||||| || |||| || || ||||| ||||| |||||||| |||||||| || |||||||||||||| |||| |
-----------------gtaagctgtatttcgcaaatacttgtttt--ctactaacaacatattactgttt--cttgatattttttcc----tggtctagGTACCGTTCTCTAGAGTTGTATACATTGACCAATCTGACTTCCGAATGAAGGATTCAAAAGATTATTATGGGCTCGCCCCTGGTAAATCTGTTTTGCTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgctgttagtgttggatttctgagtgattttgcatttttctccccttcctttagGTTCCATTTTCTAATATTGTGTACATTGAGCACACTGATTTTCGGATGAAAGATTCGAAAGATTACTATGGGCTTGCTCCTGGTAAATCTGTCCTGCTCA
tgattttgcatttttc CT-rich tract
atttttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttccaattttgatcactatactgttctgatcctatatcaaatattgctgttagtgttggatttctgagtgattttgcatttttctccccttcctttagGTTCCATTTTCTAATATTGTGTACATTGAGCACACTGATTTTCGGATGAAAGATTCGAAAGATTACTATGGGCTTGCTCCTGGTAAATCTGTCCTGCTCA
- - - - - - - - - - - - - -ctgatcc
- - - - - - - - - - - - - - - - - - -atcaaat
- - - - - - - - - - - - - - - - - - - - - - - tgctgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - gtgttgg