Sequence
atgc intronic sequence ATGC exonic sequence...aaatagaagttaaaagttatatgtgtctcaaccattagtttcacttctttgcaaccatttacttgtgtttaaaatatgatttccttaaaaatttctgcagGCTAAGTTATCAACTACTGATGATGAGACCTGGAAAGAAAGGGAAGCTGCCGTTTTAGCTCTTGGTGCTGTAGCTGAGGGTTGCATTACTGGTCTTTATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os04g59494.4 (Oryza sativa), 3'ss of exon 12
-----aaatagaagttaaaagttatatgtgtctcaaccattagtttcacttctttgcaaccatttacttgtgtttaaaatatgatttccttaaaaatttctgcagGCTAAGTTATCAACTACTGATGATGAGACCTGGAAAGAAAGGGAAGCTGCCGTTTTAGCTCTTGGTGCTGTAGCTGAGGGTTGCATTACTGGTCTTTATC
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tattgggttgttggccaagtgtt-tatatgttccgatgctgtgtgctgtttctg-accttgaatgatttg-gataaacatacacctttttctgta--ttttgcagCAAAATCTGGCTCGAACTGACGATGATGCGTGGAAGGAGAGGGAAGCTGCTGTTTTGTCTATTGGTGCTATAGCGGAGGGATGCATTACTGGGCTATATC
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA20G24040.1 (Glycine max), 3'ss of exon 12
aaatagaagt-----taaaagttatatgtgt---ctcaaccattagtttcacttctttgcaaccatttacttgtgtttaaaatatgatttccttaaaaatttctgcagGCTAAGTTATCAACTACTGATGATGAGACCTGGAAAGAAAGGGAAGCTGCCGTTTTAGCTCTTGGTGCTGTAGCTGAGGGTTGCATTACTGGTCTTTATC
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acataggtgtatatatgtaagacatctatgaaaactatattatgacgctaatttctctgcaagcctttcttt----ttatgaggccattct----aaaatttctgcagGCTAAGTTATCTGCTGGTGGGGATGATGCTTGGAAAGATAGGGAAGCTGCTGTCTTGGCTCTTGGTGCTATAGGCGAAGGTTGCATCAATGGTCTTTATC
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA10G42960.1 (Glycine max), 3'ss of exon 12
aaatagaagttaaaagttatatgtgtctcaaccattagtttcacttctttgcaaccatttacttgtgtttaaa-ata-tgatttccttaaaaatttctgcagGCTAAGTTATCAACTACTGATGATGAGACCTGGAAAGAAAGGGAAGCTGCCGTTTTAGCTCTTGGTGCTGTAGCTGAGGGTTGCATTACTGGTCTTTATC
|| | | | | | || | || | || |||| |||| ||| || | | | ||| | | | | | |||| ||||||||||||| || || || ||||| | |||||||| ||||||||||| || || |||||||||||| ||| ||| |||||||| | |||||||||||
--gtatatatgagacatctatgaaaactatattatgacgctcgtttctccgcaaggctttctttttatgaggatatactaaaatttctgaggatttgtgcagGCTAAGTTGTCTGCTGGTGGGGATGATGCTTGGAAAGATAGGGAAGCTGCTGTCTTGGCTCTTGGTGCTATAGGTGAAGGTTGCATCAATGGTCTTTATC
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT2G16950.1 (Arabidopsis thaliana), 3'ss of exon 12
aaatagaagttaaaagttatatgtgtctcaaccattagtttcacttctttgcaaccatttacttgtgtttaaaatatgatttccttaaaaatttctgcagGCTAAGTTATCAACTACTGATGATGAGACCTGGAAAGAAAGGGAAGCTGCCGTTTTAGCTCTTGGTGCTGTAGCTGAGGGTTGCATTACTGGTCTTTATC
|| ||| | | | ||| || || | |||| || | | || | |||||| || |||||| || ||| ||||||| |||||||| ||||||||||||| ||||| ||||| || ||| | ||||| || ||||| | ||||||||| |
------------------------gtaaatgttattcatcttggtctttttgaaatgaacacaattagctaaaccctgttcttctaag------ctgcagAAAAATTTATCAGCTTCTGGTGATGAGGCCTGGAAACAAAGGGAAGCTGCTGTTTTGGCTCTCGGCGCTATTGCTGAAGGCTGCATGAATGGTCTTTACC
upper sequence: Vv03s0038g02830.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: PP1S14_82V6.1 (Physcomitrella patens), 3'ss of exon 12
aaatagaagttaaaagttatatgtgtctcaaccattagtttcacttctttgcaaccatttacttgtgtttaaaatatgatttccttaaaaatttctgc---agGCTAAGTTATCAACTACTGATGATGAGACCTGGAAAGAAAGGGAAGCTGCCGTTTTAGCTCTTGGTGCTGTAGCTGAGGGTTGCATTACTGGTCTTTATC
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--------gtacatatttatacgattttttttggtttgttccagttct--gaaatttgcaaggttacatcatcatgttgcttaca-agtgacttctgctttagGTGAGATTGTCCGCAACAAAAGATTCGGCATGGGAAGAAAAGGAGGCTGCAATTTTAGCTCTAGGTGCTGTTGCAGAGGGTTGCATTTCAGGCCTGTCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctttgcaaccatttacttgtgtttaaaatatgatttccttaaaaatttctgcagGCTAAGTTATCAACTACTGATGATGAGACCTGGAAAGAAAGGGAAGCTGCCGTTTTAGCTCTTGGTGCTGTAGCTGAGGGTTGCATTACTGGTCTTTATC
tttctgc CT-rich tract
tgtttaaaatatgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatagaagttaaaagttatatgtgtctcaaccattagtttcacttctttgcaaccatttacttgtgtttaaaatatgatttccttaaaaatttctgcagGCTAAGTTATCAACTACTGATGATGAGACCTGGAAAGAAAGGGAAGCTGCCGTTTTAGCTCTTGGTGCTGTAGCTGAGGGTTGCATTACTGGTCTTTATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
-aatagaa
- - - - - - - - - - - - - -tcaacca
- - - - - - - - - - - - - - - - - - - - - - - - - gcaacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaatat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttaaaa