Sequence
atgc intronic sequence ATGC exonic sequencegtaatgctttatgccaacatcatagcgatagttctatagacacgattgcatggcttgatgtttggtgtgtgattccagAAATTGGTTATAGCTACAGTAAAGAAGGAACTGGGTCTTGCTTTCAGGGGTAATCAAAAGATGGTGGTTGAAGCTTTGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os08g42560.1 (Oryza sativa), 3'ss of exon 6
-----------------------------------------gtaatgctttatgccaacatcatagcgatagttctatagacacga-ttgcatggcttgatgtt----tggtgtgtgattccagAAATTGGTTATAGCTACAGTAAAGAAGGAACTGGGTCTTGCTTTCAGGGGTAATCAAAAGATGGTGGTTGAAGCTTTGGAG
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gtgagttaactgtcatgtctgattctttggtattcttctgcaggagtcattttgt-aacatattaaataatgtgtattagacttgagctaatttgcttgctgttgctactactttccattgcagAAACTTGTTATAGTGCCCTCAAAGAAAGACCTGGGGCTTGCTTTTAAGGGGAACCAAAAGATGGTGGTTGAAGCATTGGAG
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os04g32650.1 (Oryza sativa), 3'ss of exon 6
--------------------------------------------------------gtaatgctttatgc-caacatcatagcgatagttctatagacacgattgcatggcttgatgtttggtgtgtgat---tccagAAATTGGTTATAGCTACAGTAAAGAAGGAACTGGGTCTTGCTTTCAGGGGTAATCAAAAGATGGTGGTTGAAGCTTTGGAG
||||| | | | | || || ||| | || ||| | ||| || | | ||| | ||||| || |||||| | | |||||||||||| |||||||| |||| || ||||||| |||||| ||||||| ||||||
gtgagatcaacatttttctaagtttacaactgtactctgttaattgaataaatagaactatgctctttctactatattatt-tgatcaccttcctgaattatatgctttgctaataacttcttttttgacacattcagAAGTTAGTTATAACCCCGTCAAAGAAGGAACTAGGTCTTGCGTTCAAAGGGAATCAAAGGATGGTTCTTGAAGCATTGGAG
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G47890.1 (Glycine max), 3'ss of exon 4
-----------------------------------------------------------gtaatgctttatgcc--aacatcatagcgatagttctatagacacgattgcatggcttgatgtttggtgtgtgattccagAAATTGGTTATAGCTACAGTAAAGAAGGAACTGGGTCTTGCTTTCAGGGGTAATCAAAAGATGGTGGTTGAAGCTTTGGAG
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gtactgtttaatgcttaagatgttgatttgtttatgaatatacatgacttgtcccttcccttcaacttcatgctcaagcacaactctagaaaatatttggacatcactgattgacttg---ttctgtacattgtttcagAAATTGGTTATAACTCCAGTAAAGAAAGAGCTGGGTCTGGCATTCAAGGGGAACCAGAGGATGGTGGTTGAAGCACTTGAG
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G29880.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaatgctttatgccaacatcatagcgatagttctatagacacgattgcatggc-ttgatgtt-tggtgtgtgattccagAAATTGGTTATAGCTACAGTAAAGAAGGAACTGGGTCTTGCTTTCAGGGGTAATCAAAAGATGGTGGTTGAAGCTTTGGAG
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---gtatttta-gtgaacagattcatt-catctctgt---ctttattacttgtccttaacatggttatcttttatatcagAAACTTGTGATAACTCCTGTGAAGAAAGAACTGGGTCTTGCATTCAAGGGAAATCAAAAGAATGTGGTTGAATCTTTGGAG
upper sequence: Vv01s0150g00150.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G29870.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaatgctttatgccaacatcatagcgatagttctatagacacgattgcatggcttgatgtttggtgtgtgattccagAAATTGGTTATAGCTACAGTAAAGAAGGAACTGGGTCTTGCTTTCAGGGGTAATCAAAAGATGGTGGTTGAAGCTTTGGAG---------
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---gtaatttgagcta-ctcgacatttccacctctatctatataacttgtccttcatgtgattctcttat-atttcagAAACTTGCTATTACACCTGAGATGAAAGAATTGGGTCCTGCATTCAAGGGAAATCAAAAGAATGTGGTTGAAGCTTTGGAGGTAGACTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcgatagttctatagacacgattgcatggcttgatgtttggtgtgtgattccagAAATTGGTTATAGCTACAGTAAAGAAGGAACTGGGTCTTGCTTTCAGGGGTAATCAAAAGATGGTGGTTGAAGCTTTGGAG
gcttgat putative branch site (score: 5)
ttctata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgctttatgccaacatcatagcgatagttctatagacacgattgcatggcttgatgtttggtgtgtgattccagAAATTGGTTATAGCTACAGTAAAGAAGGAACTGGGTCTTGCTTTCAGGGGTAATCAAAAGATGGTGGTTGAAGCTTTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG