Sequence
atgc intronic sequence ATGC exonic sequence...tggattgcttgtctcttctcatacactccattcttctgaagttggactccagttgaaatcacttgctgatggaggataattcacattttttggatggcagGGGGCAGTTAATTTTGCTTTAATGATGTCTCAAATGGAAGGAGGTTGCCCAGTTGATTACAACACAATAACAGATCTATTCCTTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 14
----tggattgcttg---tctcttctcatacactccattcttctgaagttggactccagttgaaatcacttgctgatggag--gataattcac---attttttggatggcagGGGGCAGTTAATTTTGCTTTAATGATGTCTCAAATGGAAGGAGGTTGCCCAGTTGATTACAACACAATAACAGATCTATTCCTTCAG
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gtaatgtattggttaagctattttgggctagggtgaaatactctgctttgttctgtgggttgttgatttttatttgcaaaattaattatttactgtatatctcttttaccagGGAGCTGTCAACTTTGCGCTCATGATGTCACAAATGGAGGGGGGCTGTCCAGTTGATTACAATACTATAACTGATCTCTTCCTTCAG
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 14
--------tggatt--gcttgtctcttctcatacactccattcttctgaagttggactccagttgaaatc-acttgctga-tggaggataattcacattttttggatggcagGGGGCAGTTAATTTTGCTTTAATGATGTCTCAAATGGAAGGAGGTTGCCCAGTTGATTACAACACAATAACAGATCTATTCCTTCAG
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gtaatttattggttaagctattttgtgctagggtgaaatattctgctttgttctgtgggttgttgatttttatttgcaaaatttattatttactgtatatctcttttaccagGGAGCTGTCAACTTTGCGCTCATGATGTCACAAATGGAGGGGGGCTGTCCAGTTGATTACAATACTATAACTGATCTCTTCCTTCAG
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA02G39360.1 (Glycine max), 3'ss of exon 14
-tggattgcttgtctcttctcatacactccattcttctgaagttggactccagttgaaatcacttgctgatggaggataattcacattttttggatggcagGGGGCAGTTAATTTTGCTTTAATGATGTCTCAAATGGAAGGAGGTTGCCCAGTTGATTACAACACAATAACAGATCTATTCCTTCAG
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ctatattgtttatgatgcttgcctagttacctttatacaatatcaattatcttgctagtttactcttttattt-gtttatttagaacttgtttcattgcagGGTGCTGTAAATTTTGCTCTGATGATGTCTCAAATGGAGGGGGGTTGCCCTGTTGACTACAACACAATAACTGATCTCTTTCTTCAG
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA01G38580.1 (Glycine max), 3'ss of exon 14
tggattgcttgtctct----tctcatacactccattcttctgaagttggactccagttgaaatcacttgctgatggaggataattca-cattttttggatggcagGGGGCAGTTAATTTTGCTTTAATGATGTCTCAAATGGAAGGAGGTTGCCCAGTTGATTACAACACAATAACAGATCTATTCCTTCAG
||| || ||||| ||| || | ||| || | | | | | || | || || | || |||||| | | ||| | ||| |||||| || || ||||||||| | ||||||||||||||||||||||| ||||| |||| |||||||| ||||||||||| || ||||||
---att-ctattctctgaaatctgatttgtttaatttttttagcatccaagttgatttttttttggtttatg-tatagcataatttaatactttcttgattgcagGGTGCTGTAAATTTTGCTCTGATGATGTCTCAAATGGAAGGAGGATGCCCCATTGACTACAACACCATAACAGATCTCTTTCTTCAG
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA11G06720.1 (Glycine max), 3'ss of exon 14
tggattgcttgtctct---tctcatacactccattcttctgaagttggactccagttgaaatcacttgctgatggaggataattcaca-ttttttggatggcagGGGGCAGTTAATTTTGCTTTAATGATGTCTCAAATGGAAGGAGGTTGCCCAGTTGATTACAACACAATAACAGATCTATTCCTTCAG
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---atctctgaaatctggtttgtttaagttttgtagcatccaagttgattttttcttttagtttatgtatagta-agtatatttcaaaactttctttattgcagGGAGCTGTAAATTTTGCTCTGATGATGGCTCAAATGGAAGGAGGATGCCCCATTGACTACAACACAATAACTGATCTCTTTCTTCAG
upper sequence: Vv06s0004g06860.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA14G37510.1 (Glycine max), 3'ss of exon 12
tggattgcttgtc-tcttctcatacactccattcttctgaagttggactccagttgaaatcacttgctgatggaggataattcaca-ttttttggatggcagGGGGCAGTTAATTTTGCTTTAATGATGTCTCAAATGGAAGGAGGTTGCCCAGTTGATTACAACACAATAACAGATCTATTCCTTCAG
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--tattgtttatgatgcttacctagttacctttatacaatatctaatatcttgccagtttactctttttttatttgtttatttagaactcgttttattgcagGGTGCTGTAAATTTTGCTCTGATGATGTCTCAAATGGAGGGGGGTTGCCCTGTTGACTATAACACAATAACCGATCTCTTTCTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actccagttgaaatcacttgctgatggaggataattcacattttttggatggcagGGGGCAGTTAATTTTGCTTTAATGATGTCTCAAATGGAAGGAGGTTGCCCAGTTGATTACAACACAATAACAGATCTATTCCTTCAG
tgctgat putative branch site (score: 3)
catttttt putative PPT
ataattcacatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggattgcttgtctcttctcatacactccattcttctgaagttggactccagttgaaatcacttgctgatggaggataattcacattttttggatggcagGGGGCAGTTAATTTTGCTTTAATGATGTCTCAAATGGAAGGAGGTTGCCCAGTTGATTACAACACAATAACAGATCTATTCCTTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - gcttgtc
- - - - - - - cttctca
- - - - - - - - - - - -cactcca
- - - - - - - - - - - - - - - - cttctga
- - - - - - - - - - - - - - - - - - - - - - gactcca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cacttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aggataa