Sequence
atgc intronic sequence ATGC exonic sequencegtaaacctctcagatacttcttatcatattctcaaacatttcctagtaaggttctcttggtattacttattttcatctgaactattgatttgtaactgcagGGGTCGAGGATACCTTACCAGTAGAGCCTTGGTATATAGGTGGGCCTGTCATTAAGGGATTTGGTCGTGGGTCAAAGGTACTTGGAGTCCCAACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0181g00140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os10g32730.1 (Oryza sativa), 3'ss of exon 7
gtaaacctctcagatacttcttatcatattctcaaacatttcctagtaaggttctcttggtattacttattttcatctgaactattgatttgtaactgcagGGGTCGAGGATACCTTACCAGTAGAGCCTTGGTATATAGGTGGGCCTGTCATTAAGGGATTTGGTCGTGGGTCAAAGGTACTTGGAGTCCCAACAG
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-------------gtatgctctaac---tcttgggactacttctgttagaaaattctgggcatctttaactt--atct-actgacatatttctta-tgcagGGATCGATGATACCTTACCAATAGAACCATGGTTTATTGGTGGACCTGTGATTAAAGGATTTGGCCGTGGTTCTAAAGTACTAGGAATTCCAACAG
upper sequence: Vv00s0181g00140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os10g14814.1 (Oryza sativa), 3'ss of exon 6
gtaaacctctcagatacttcttatcatattctcaaacatttcctagtaaggttctcttggtattact--tattttcatctgaactattgat---ttgtaactgcagGGGTCGAGGATACCTTACCAGTAGAGCCTTGGTATATAGGTGGGCCTGTCATTAAGGGATTTGGTCGTGGGTCAAAGGTACTTGGAGTCCCAACAG
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-------------------------gtatgttctaactcttgggactacttctgttagaaaattacaggcatctttatcttatctattgacatattttatatgcagGGATTGATGATACCTTACCAATAGAACCATGGTTTATAGGTGGATCTGTGATTAAAGGATTCGGCCGTGGTTCTAAAGTACTAGGAATTCCAACAG
upper sequence: Vv00s0181g00140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G027115_T01 (Zea mays), 3'ss of exon 8
gtaaacctctcagatacttcttatc-atattctcaaacatttcctagtaaggttctcttggtattacttattttcatctgaactattgatttgtaactgcagGGGTCGAGGATACCTTACCAGTAGAGCCTTGGTATATAGGTGGGCCTGTCATTAAGGGATTTGGTCGTGGGTCAAAGGTACTTGGAGTCCCAACAG
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gtatgttcaaagtcttgagcttctctatacttttgttcattg---agaagagaacattatgtgggttttaagcttatctgt-cgataaatgtgctg-tgcagGGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGATCAAAGGATTTGGCCGTGGTTCTAAAGTACTAGGAATACCAACAG
upper sequence: Vv00s0181g00140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G027115_T02 (Zea mays), 3'ss of exon 8
gtaaacctctcagatacttcttatc-atattctcaaacatttcctagtaaggttctcttggtattacttattttcatctgaactattgatttgtaactgcagGGGTCGAGGATACCTTACCAGTAGAGCCTTGGTATATAGGTGGGCCTGTCATTAAGGGATTTGGTCGTGGGTCAAAGGTACTTGGAGTCCCAACAG----
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gtatgttcaaagtcttgagcttctctatacttttgttcattg---agaagagaacattatgtgggttttaagcttatctgt-cgataaatgtgctg-tgcagGGATTGAAGGTACCTTACCAATAGAACCATGGTTTATTGGTGGGCCTGTGATCAAAGGATTTGGCCGTGGTTCTAAAGTACTAGGAATACCAACAGGTAT
upper sequence: Vv00s0181g00140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G30970.1 (Glycine max), 3'ss of exon 6
gtaaacctctcagatacttcttatcatattctcaaacatttcctagtaaggttctcttggtattac-ttattttcatctgaactattgatttgta--actgcagGGGTCGAGGATACCTTACCAGTAGAGCCTTGGTATATAGGTGGGCCTGTCATTAAGGGATTTGGTCGTGGGTCAAAGGTACTTGGAGTCCCAACAG
||||||| | | |||||| || ||| || || | | | | |||| || | || | |||| || ||||||||| ||| | | ||||||||| |||| || || || ||||| || |||||||| ||||| ||||| | ||||||||||||||||| |||||||||||||| |||| ||||
gtaaacccc--aaatactt--taagatagtc-cattttgtatgtgttgtgtttctttttattgtatgtcatttatatttgaactattattttaaattattgcagGGGTGGAGGGAACTTTGCCCGTAGATCCCTGGTATATTGGTGGTCCTGTTGTCAAGGGATTTGGTCGTGGCTCAAAGGTACTTGGGATCCCTACAG
upper sequence: Vv00s0181g00140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G06330.1 (Glycine max), 3'ss of exon 1
gtaaacctctcagatacttcttatcatattctcaaacatttcctagtaaggttctcttggtattacttattttcatctgaactattgatttgtaac--tgcagGGGTCGAGGATACCTTACCAGTAGAGCCTTGGTATATAGGTGGGCCTGTCATTAAGGGATTTGGTCGTGGGTCAAAGGTACTTGGAGTCCCAACAG
||| ||| | | |||||| || ||| || | | | | | |||| || | | | |||| || ||||||| | ||| | ||||||||| |||| || || || |||| ||||||||||| | ||| |||||| |||||||||||||||||| || ||||||||||| |||| ||||
gtatacccc--aaatactt--taagatagtcctttttgtatg-tgttgtgtttcttttattgtatgtcatttatatttgaactagtattttaaatttttgcagGGGTGGAGGGAACTTTGCCCCTAGATCCTTGGTATATTGTTGGTCCTGTCGTTAAGGGATTTGGTCGTGACTCGAAGGTACTTGGGATCCCTACAG
upper sequence: Vv00s0181g00140.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S79_94V6.1 (Physcomitrella patens), 3'ss of exon 6
-----------------gtaaacctctcagat--acttcttatcatattct-caaacatttcctagtaaggttctcttggta---ttacttattttcat-ctgaactattgatttg-taactgcagGGGTCGAGGATACCTTACCAGTAGAGCCTTGGTATATAGGTGGGCCTGTCATTAAGGGATTTGGTCGTGGGTCAAAGGTACTTGGAGTCCCAACAG
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gtaactccctcaacttcaacaaactagcagatttgtgtcttttaatctgttgcaagcaaattccagttcttgtttatttattcatttatttattttttcgttaagcaatcaaggcaactgttgcagGAATTGGTGGCGCTATACCTATAGAGCCATGGTACATGGGTGGGCCAGTTATTAAGGGCTTTGGTCGTGGCTCAAAATTGCTTGGGACTCCCACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaggttctcttggtattacttattttcatctgaactattgatttgtaactgcagGGGTCGAGGATACCTTACCAGTAGAGCCTTGGTATATAGGTGGGCCTGTCATTAAGGGATTTGGTCGTGGGTCAAAGGTACTTGGAGTCCCAACAG
ttgtaac putative branch site (score: 2)
tattacttattttcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaacctctcagatacttcttatcatattctcaaacatttcctagtaaggttctcttggtattacttattttcatctgaactattgatttgtaactgcagGGGTCGAGGATACCTTACCAGTAGAGCCTTGGTATATAGGTGGGCCTGTCATTAAGGGATTTGGTCGTGGGTCAAAGGTACTTGGAGTCCCAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG