Sequence
atgc intronic sequence ATGC exonic sequence...aatgcgacctcccaacaatctcgatttgtatatgttactgctcaacacaagataatggattgaggtaacactaaccacaaacaatacaatgttgaatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGACGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGGCTGCTATGCTAACTGCTCCGGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g10940.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA06G04130.1 (Glycine max), 3'ss of exon 1
----aatgcgacctcccaacaatctcgatttgtatatgttactgctcaacacaagataatggattgaggtaacactaaccacaaacaataca-atgttgaatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGACGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGGCTGCTATGCTAACTGCTCCGGATG
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acaagaatcaaggatatataaaccaca--ttatatatcttatatgttaatt--atataacttaatgtagtc-tgttaacaattaacgatttatatatacatgcagGAGTTGGACGGTGAGGATGCAAGGCTTGCAGACTATTTTGATGTGATTGCTGGAACAAGCACAGGTGGTATTGTAACAGCTATGCTAAGTGCTCCAAATG
upper sequence: Vv18s0001g10940.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA04G03970.1 (Glycine max), 3'ss of exon 1
aatgcgacctcccaacaatctcgatttgtatatgttactgctcaacacaag-ataatggattgaggtaacactaaccacaaacaatacaatgttgaatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGACGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGGCTGCTATGCTAACTGCTCCGGATG
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aaagaaaacgtc-aagaatcatggataaagcacattatcttataagttaattataacttaatgtggtctgttaattaataattaacgatctatacatgcagGAGTTGGACGGTGAGGATGCAAGGCTTGCAGACTATTTTGATGTGATTGCAGGAACAAGCACAGGAGGTATTGTAACAGCTATGTTAACTGCTCCAAATG
upper sequence: Vv18s0001g10940.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G36250.1 (Glycine max), 3'ss of exon 1
aatgcgacctcccaacaatctcgatttgtatatgttactgctcaacacaagat-----aatggattgaggta-acactaacca--caaacaatacaatgttgaatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGACGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGGCTGCTATGCTAACTGCTCCGGATG-
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------atatgtcaaca-tgtggaaccata-atactaatcctatacatagtattgaaagaataattacattatatattgatccattcgggggcatgatat-gatgcaggAATTGGATGGTCCAGATGCAAGGCTTGCAGACTATTTTGACGTGATATCAGGAACAAGCACAGGAGGTCTTGTAACCGCTATGATAACTGCTCCAGACAA
upper sequence: Vv18s0001g10940.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA14G08910.1 (Glycine max), 3'ss of exon 1
--------------------------------------------------------------------------------------------aatgcgacctcccaaca-atctcgatttgta-tatgttactgctcaacacaagataatggattga-ggtaacac---taaccacaaacaatacaatgttg-aat-cagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGACGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGGCTGCTATGCTAACTGCTCCGGATG
| ||| | | | || | | | || | | || ||| | | || | ||| | ||| || || | ||| || ||| |||||| |||| ||| || || ||| |||||||||| || || ||||| | |||||||||||||| |||||||| |||||||| |||||||||| ||
gtatattgatcatctagctatacaaatattgttgtttatcttctaattaatccatcactgatgagctatatatatattttttccttaacaaaaccatgacataatagtatattactaataataattcataaccaaccaaaatgaaatgtttaattcataacgacatatatattcatcggggccatgatgatgcaatgcagGAGTTGGACGGTCCAGAAGCGAGGCTTGCAGACTATTTTGATGTGATATCAGGAACAAGCACAGGAGGTCTTGTAACTGCTATGATAACTGCTCCAGACA
upper sequence: Vv18s0001g10940.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G36240.1 (Glycine max), 3'ss of exon 1
----aatgcgacctcccaacaatctcgatttgtatatgt-tactgctcaacacaagataatggattgaggtaac-actaaccacaaacaatacaatgttgaatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGACGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGGCTGCTATGCTAACTGCTCCGGATG
|| | || | | |||| ||| | || | | || | ||||| | | || | || | ||| ||| || ||||| |||||||| || |||||| | |||||||| || || ||||| | |||||||||||||| |||||||| | |||||| |||||||||| ||
cattcatattgaaccaaaatgacaacattttgaatacatctagtattgaa---agaataattacattatatattgatcaatttcggggaatgatatgatg---cagGAATTGGATGGTCCAGAAGCAAGGCTCGCAGACTATTTTGATGTGATATCAGGAACAAGCACAGGAGGTCTTGTAACCGCTATGATAACTGCTCCAGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cacaagataatggattgaggtaacactaaccacaaacaatacaatgttgaatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGACGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGGCTGCTATGCTAACTGCTCCGGATG
cactaac putative branch site (score: 1)
aaacaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatgcgacctcccaacaatctcgatttgtatatgttactgctcaacacaagataatggattgaggtaacactaaccacaaacaatacaatgttgaatcagGAGCTGGATGGTGATGATGCAAGGATTGCAGACTACTTCGACGTGATTGCTGGAACAAGCACAGGTGGTCTTGTGGCTGCTATGCTAACTGCTCCGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - acctccc
- - - - - - - -caatctc
- - - - - - - - - - - - - - - - - -tactgct
- - - - - - - - - - - - - - - - - - - - - caacaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tggattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacactaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccacaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatacaa