Sequence
atgc intronic sequence ATGC exonic sequence...tctagttttctcattcaagattatttccctcatgaggaattttacacaatcacaaggaacattatcaaataatgccctgtttctgtatttttttggatagGATCTGTGCTGGTTGCAATACTGAGATTGGTCATGGACGTTTTCTAAGTTGCATGGGTGCAGTTTGGCATCCAGAATGTTTCAGATGCCACGGTTGCGGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os06g08400.1 (Oryza sativa), 3'ss of exon 4
tctagttttctcattcaagattatttccctcatgaggaattttacacaatcacaaggaacattatcaaataatgccct---gtttctgtatttttttggatagGATCTGTGCTGGTTGCAATACTGAGATTGGTCATGGACGTTTTCTAAGTTGCATGGGTGCAGTTTGGCATCCAGAATGTTTCAGATGCCACGGTTGCGGC
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-ctgcactgatacttggggatggtaat--tggtaagcgagaatgggatgctgcgagttgcttttactcttactgtttcttaatatatacgcttatttcctcagGACTTGTGCCGGATGTCACAGTGAGATTGGTCATGGGCGTTTCCTTAGTTGCATGGGAGCTGTTTGGCATCCAGAATGTTTTCGCTGTCATGCTTGTAAT
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G017845_T04 (Zea mays), 3'ss of exon 4
tctagttttctcattcaagattatttccctcatgaggaattttacaca-atcacaaggaacattatcaaataatgccctgtttctgta-------tttttttggatagGATCTGTGCTGGTTGCAATACTGAGATTGGTCATGGACGTTTTCTAAGTTGCATGGGTGCAGTTTGGCATCCAGAATGTTTCAGATGCCACGGTTGCGGC
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-------gtaatgctcaagaacaca-ccaggatgattggcatggaagatatcattttgaccttttttctcttactatttttttatataaactaacttcttttctgcagAGCATGCGCAGGATGTCACAGAGAGATTGGTCACGGGCGTTTTCTCAGTTGCATGGGAGCTGTTTGGCATCCGGAATGTTTTCGTTGCCATGCATGTAGT
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G099328_T04 (Zea mays), 3'ss of exon 5
--------------------------------tctagttttctcattcaagattatttccctcatgaggaattttacacaatcacaaggaacattatcaaataatgccctgtttctgtatttttttggatagGATCTGTGCTGGTTGCAATACTGAGATTGGTCATGGACGTTTTCTAAGTTGCATGGGTGCAGTTTGGCATCCAGAATGTTTCAGATGCCACGGTTGCGGC
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gtacttattttttgcgctgatttatttgatattttagttgtgaaaatcatagaaatctccttctgtttcgtttccatattataaaaatggccaacattgatttgaccagaagtcctgt---tatgtgtatagGATTTGTGCTGGATGCCAAAACCCAATTGGCCATGGACGTTTCCTTAGTTGTATGGATTCAGTTTGGCATCCTCAATGCTTCAGATGTTTTGCTTGCAAC
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G08450.1 (Glycine max), 3'ss of exon 4
--------tctagttttctcattcaagattatttccctcatgaggaattttacacaatcacaaggaacattatcaaataatgccctgtttctgtatttttttggatagGATCTGTGCTGGTTGCAATACTGAGATTGGTCATGGACGTTTTCTAAGTTGCATGGGTGCAGTTTGGCATCCAGAATGTTTCAGATGCCACGGTTGCGGC
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ttggagaaattattctcttcgttcaatttgctatacctct----atattatcaataat-acatgtgatgcacataatttaagt--tgattagttatttgcata-atagGATTTGTGCTGGCTGCTATACTGAGATTGGTTATGGACGATATCTGAATTGCTTGAATGCATTCTGGCATCCTGAATGCTTCCGCTGCCGTGCTTGCAAC
upper sequence: Vv18s0001g11820.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G36620.1 (Glycine max), 3'ss of exon 3
------tctagttttctcattcaagattatttccctcatgaggaattttacacaatcacaaggaacattatcaaataatgccctgtttctgtatttttttggatagGATCTGTGCTGGTTGCAATACTGAGATTGGTCATGGACGTTTTCTAAGTTGCATGGGTGCAGTTTGGCATCCAGAATGTTTCAGATGCCACGGTTGCGGC-
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tggagatattattctcttctttcaatttgctatacctttatattatcaataatacatgtgatgcacataattaaag------ttgtctagttatttacata-ataggATTTGTGCTGGCTGCTATACTGAGATTGGTTTTGGACGATATCTAAATTGCTTGAATGCATTCTGGCATCCTGAATGCTTCCGCTGCCGTGCTTGCAACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaatcacaaggaacattatcaaataatgccctgtttctgtatttttttggatagGATCTGTGCTGGTTGCAATACTGAGATTGGTCATGGACGTTTTCTAAGTTGCATGGGTGCAGTTTGGCATCCAGAATGTTTCAGATGCCACGGTTGCGGC
tttctgtattttttt CT-rich tract
aacattatcaaataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctagttttctcattcaagattatttccctcatgaggaattttacacaatcacaaggaacattatcaaataatgccctgtttctgtatttttttggatagGATCTGTGCTGGTTGCAATACTGAGATTGGTCATGGACGTTTTCTAAGTTGCATGGGTGCAGTTTGGCATCCAGAATGTTTCAGATGCCACGGTTGCGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - -ctcattc
- - - - - - - - - - - - ttccctc
- - - - - - - - - - - - - - - - - - - - - - - - -tcacaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaataa