Sequence
atgc intronic sequence ATGC exonic sequence...aatcctcaaatatgttactgtggtccaagtgtcaaatataagataaaataatggatttaggtaacactaaccacaaacaatacaatattgaatatatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGATGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGACTGCCATGCTAACTGCTCCGAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g10880.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G123764_T01 (Zea mays), 3'ss of exon 1
aatcctcaaatatgtt---actgtggtccaagtgtcaaatataagataaaataatggatttaggtaacactaaccacaaacaatacaatattgaatatatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGATGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGACTGCCATGCTAACTGCTCCGAATG
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-aatttgaattgcattcagaatgaggagtg-gcatcctatttttcatacgcgaaatgctctcctgattgattcttatgtaaaac-tgttattaattgataaagAAACTCGATGGAGAGGAAGCCAGGTTAGCAGATTACTTTGATGTCATTGCTGGAACAAGCACAGGGGGGCTTGTGACCTCAATGCTGGTTGCACCAAACA
upper sequence: Vv18s0001g10880.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G04130.1 (Glycine max), 3'ss of exon 1
----aatcctcaaatatgtta-ctgtggtccaagtgtcaaatataagataaaataatggatttaggtaacactaaccacaaacaatacaatattgaatatat-cagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGATGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGACTGCCATGCTAACTGCTCCGAATG
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acaagaatcaaggatatataaaccacattatatatcttatatgttaattatataacttaatgtagtc--tgttaacaattaacgattta----tatatacatgcagGAGTTGGACGGTGAGGATGCAAGGCTTGCAGACTATTTTGATGTGATTGCTGGAACAAGCACAGGTGGTATTGTAACAGCTATGCTAAGTGCTCCAAATG
upper sequence: Vv18s0001g10880.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G03970.1 (Glycine max), 3'ss of exon 1
-----aatcctcaaatatgttactgtggtccaagtgtcaaatataagataaaataatggatttaggtaacactaaccacaaacaatacaatattgaatatat-cagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGATGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGACTGCCATGCTAACTGCTCCGAATG
|| | |||| || | | | | || |||||| ||| | || || | || || | || ||| || | ||| || |||||| |||| ||||| ||||||||| |||||||||| || ||||||||||| |||||||||||||| ||| |||| || || ||| |||||||||| ||||
aaagaaaacgtcaagaatcatggataaagcacattatct--tataagttaa--ttataacttaatgtggt-ctgttaattaataat-taacgatctatacatgcagGAGTTGGACGGTGAGGATGCAAGGCTTGCAGACTATTTTGATGTGATTGCAGGAACAAGCACAGGAGGTATTGTAACAGCTATGTTAACTGCTCCAAATG
upper sequence: Vv18s0001g10880.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G08910.1 (Glycine max), 3'ss of exon 1
-----------------------------------------------------------------------------------------aatcctcaaatatgttactgtggtccaagtgtcaa---ata------taagataaaataatggattta-ggtaacactaaccacaaacaatacaatattgaatatat-cagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGATGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGACTGCCATGCTAACTGCTCCGAATG
|| | | || || | | | | | | || ||| || || |||| | ||| | ||| | | | | || ||| || |||||| |||| ||| || || ||| |||||||||| || |||||||| | |||||||||||||| |||||||| ||||| ||| |||||||||| |
gtatattgatcatctagctatacaaatattgttgtttatcttctaattaatccatcactgatgagctatatatatattttttccttaacaaaaccatgacataatagtatattactaataataattcataaccaaccaaaatgaaatgtttaattcataacgacatatatattcatcggggccatgatgatgcaatgcagGAGTTGGACGGTCCAGAAGCGAGGCTTGCAGACTATTTTGATGTGATATCAGGAACAAGCACAGGAGGTCTTGTAACTGCTATGATAACTGCTCCAGACA
upper sequence: Vv18s0001g10880.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G36250.1 (Glycine max), 3'ss of exon 1
-aatcctcaaatatgttactgtggtccaagtgtcaaatataagat-aaaataatggatttaggtaacactaaccacaaacaatacaatattgaatatatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGATGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGACTGCCATGCTAACTGCTCCGAATG-
|| | || || || | | | | | | | ||| || ||| ||| | | | | | | | || | || | || ||||| |||||||| ||||||||| |||||||||| || || ||||| | |||||||||||||| |||||||| || || ||| |||||||||| |
atatgtcaacatgtggaaccataatactaatcctatacatagtattgaaagaataattacattatatattgatc-cattcgggggcatgat--atgatgcaggAATTGGATGGTCCAGATGCAAGGCTTGCAGACTATTTTGACGTGATATCAGGAACAAGCACAGGAGGTCTTGTAACCGCTATGATAACTGCTCCAGACAA
upper sequence: Vv18s0001g10880.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G36240.1 (Glycine max), 3'ss of exon 1
-------aatcctcaaatatgttactgtggtccaagtgtcaaatataagataaaataatggatttaggtaac-actaaccacaaacaatacaatattgaatatatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGATGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGACTGCCATGCTAACTGCTCCGAATG
| | | || ||| | | | | || | ||| | | |||||| ||| || | || | ||| || || ||||| |||||||| || |||||| | |||||||| || |||||||| | |||||||||||||| |||||||| || || ||| |||||||||| |
cattcatattgaaccaaaatgacaacattttgaatacatctagtattgaa-agaataattacattatatattgatcaatttcggggaatgatatgatg-------cagGAATTGGATGGTCCAGAAGCAAGGCTCGCAGACTATTTTGATGTGATATCAGGAACAAGCACAGGAGGTCTTGTAACCGCTATGATAACTGCTCCAGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaataatggatttaggtaacactaaccacaaacaatacaatattgaatatatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGATGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGACTGCCATGCTAACTGCTCCGAATG
cactaac putative branch site (score: 1)
aaacaatacaatattg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatcctcaaatatgttactgtggtccaagtgtcaaatataagataaaataatggatttaggtaacactaaccacaaacaatacaatattgaatatatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGATGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGACTGCCATGCTAACTGCTCCGAATG
- -cctcaaa
- - - - - - - - - - - - ccaagtg
- - - - - - - - - - - - - - - - -aaatata
- - - - - - - - - - - - - - - - - - - - - - aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatacaa