Sequence
atgc intronic sequence ATGC exonic sequence...tattcatatttagatcttatggaagtggagctatttccgttctcggtaaacttacatatccaaaaagctacttctggttctcatactactggtatttcagGCACCCAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCAATAAAATTCCGTGGGGTAAATGCCGTAACCAACTTTGATATAACAAGGTACGATGTGGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0151g00440.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os03g12950.1 (Oryza sativa), 3'ss of exon 8
tattcatatttagatcttatggaagtggagctatttccgttctcggtaaacttacatatccaaaaagctacttctggttctcatactactg-gtatttcagGCACCCAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCAATAAAATTCCGTGGGGTAAATGCCGTAACCAACTTTGATATAACAAGGTACGATGTGGA
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actttgcagtaggatct-acattggtttttggatgtataaacaagatggccttattacaacggagcgtttccattggttaatctatttttatgcaatacagGCACTCAAGAAGAAGCAGCAGAGGCATACGACATTGCTGCCATCAAGTTCCGTGGCCTGAACGCGGTGACGAACTTTGACATCACAAGGTACGACGTGGA
upper sequence: Vv07s0151g00440.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA17G17010.1 (Glycine max), 3'ss of exon 8
-tattcatatttagatcttatggaagtggagctatttccgttctcggtaaacttacat--atccaaaaagctacttctggttctcatactactggtatttcagGCACCCAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCAATAAAATTCCGTGGGGTAAATGCCGTAACCAACTTTGATATAACAAGGTACGATGTGGA
|| ||| || || | || | | | | | | || ||| |||||| | | ||| || | | | | ||| || ||||||||||||||||||||||||||||||||||| ||||||||||| || | ||||| |||||||||||||| |||||||| || ||||| ||
tgatccattgttttataccaaagaga--aaacaaaaaaaaaaaaaaaagatccaatattggcacaacaagctaatcattagtcttatgaaattaa-actctagGTACACAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCTATAAAATTCCGAGGAGCGAATGCTGTAACCAACTTTGACATAACAAGATATGATGTTGA
upper sequence: Vv07s0151g00440.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G22970.1 (Glycine max), 3'ss of exon 10
-tattcatatttagatcttatggaagtggagctatttccgttctcggtaaacttacatatccaaaaagctacttctggttctcatactactggtatttcagGCACCCAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCAATAAAATTCCGTGGGGTAAATGCCGTAACCAACTTTGATATAACAAGGTACGATGTGGA
| | || | | || | | | || | | | | || ||| | || | || | | | | | | ||| || |||||||||||||||||||||||||| |||||||| ||||||||||| || | ||||| |||||||||||||| || ||||| || ||||||||
caaatagtacctttccaatgtgtctgccccccaaccccccccccccccccttgtttgttgtcacaaaaat-ctaatcattattactgaaattaaactctagGTACACAAGAGGAAGCAGCTGAAGCCTATGATATTGCTGCTATAAAATTCCGAGGAGCGAATGCTGTAACCAACTTTGACATCACAAGATATGATGTGGA
upper sequence: Vv07s0151g00440.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA11G04910.1 (Glycine max), 3'ss of exon 8
-tat-tcatatttagatcttatggaagtggagctatttccgttctcggtaaacttacatatccaaaaagctacttctggttctcatactactggtatttcagGCACCCAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCAATAAAATTCCGTGGGGTAAATGCCGTAACCAACTTTGATATAACAAGGTACGATGTGGA
|| || | | | ||| | | | ||| |||| | || | | ||||||| |||| | || | | | || ||| |||||||||||||||||||||||||||||||||||||| || |||||| | || || ||||| || || ||||||||||||||||| || || |||||
tgatgtctttctcatgctttaggccaaaataataattataattctaatcca--ttgtcagtacggaaagctaattcttaccttaattaaaataaaactttagGTACCCAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCTATTAAATTCAGAGGAGTTAATGCTGTTACAAACTTTGATATAACAAGATATGACGTGGA
upper sequence: Vv07s0151g00440.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA01G40380.1 (Glycine max), 3'ss of exon 7
------tattcatatttagatcttatggaagtggagctatttccgttctcggtaaacttacatatccaaaaagctacttctggttctcatactactggtatttcagGCACCCAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCAATAAAATTCCGTGGGGTAAATGCCGTAACCAACTTTGATATAACAAGGTACGATGTGGA
|||| ||| || | | || | || | ||| | | | | |||||| | || | || | | | || ||| |||||||||||||||||||||||||||||||||||||| || |||||| | || || ||||| || || ||||||||||||||||| || || |||||
tgatatcattctcattctcatgctttagac-caaaataataataatactccat-----tgtcggtacgggaagctaatgcttacctttattaaaataaaactttagGTACCCAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCTATTAAATTCAGAGGAGTTAATGCTGTCACTAACTTTGATATAACAAGATATGACGTGGA
upper sequence: Vv07s0151g00440.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S131_139V6.1 (Physcomitrella patens), 3'ss of exon 5
-------------------------------------------------------------------------------tattcatatttagatcttatggaagtggagctatttccgttctcg--gtaaacttacat--atccaaaaagctacttctggt-tctcatact--------actggtatt-------tcagGCACCCAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCAATAAAATTCCGTGGGGTAAATGCCGTAACCAACTTTGATATAACAAGGTACGATGTGGA
||| || | ||| || | |||| | ||||| | || || | || | | | | || | || || | ||||| || |||||||| |||||||||||||| || ||||| |||||||| || |||||||||||||| | |||||||| || ||||| || || | | ||| ||| |
gtgagtgccggtttcacatgaatttgtaaacattagtggattaccctcgctgcaaatcctggtcgtttctcctgataggacttctgatatcgattccggagacatcagcatattctgggtctcgttgcaatgttgaaaggatttcgcagggtgcccatgttacctaatggttaaaatgaactggctttgtatgactcagGCACACAAGAGGAAGCAGCAGAGGCCTACGACATTGCCGCGATAAAATTCCGTGGAATCAATGCCGTCACAAACTTCGACATGTCTCGTTACAATGCTGC
upper sequence: Vv07s0151g00440.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: PP1S131_131V6.1 (Physcomitrella patens), 3'ss of exon 6
-------------------------------------------------------------------------------tattcatatttagatcttatggaagtggagctatttccgttctcggtaaacttacatatccaaaaagctacttctggttctcatactactggtatttcagGCACCCAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCAATAAAATTCCGTGGGGTAAATGCCGTAACCAACTTTGATATAACAAGGTACGATGTGGA
||| | | | | | || || | | || | ||| | | | | | | ||| | || | | || ||| ||||||||| |||||||||||||| || ||||| ||||| ||||| ||||||| ||||| | |||||||| || |||||| |||| | | ||| | |
gtaagtgcaggtctcacatgaattcgtgcacagtagcggattactctcgctccatatagcggtcatttctcctgataggacttccgacgttgcttccagagacgtcggagtgttctggatctagatgtgcccatgttatctaaatg----tttgaataaactggctgt--gtaattcagGCACTCAAGAGGAAGCAGCGGAGGCCTACGACATAGCTGCCATAAAATATCGTGGAATTAATGCCGTCACAAACTTTCATATCTCTCGTTACCTAGCTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaaacttacatatccaaaaagctacttctggttctcatactactggtatttcagGCACCCAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCAATAAAATTCCGTGGGGTAAATGCCGTAACCAACTTTGATATAACAAGGTACGATGTGGA
aacttac putative branch site (score: 2)
ttacatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattcatatttagatcttatggaagtggagctatttccgttctcggtaaacttacatatccaaaaagctacttctggttctcatactactggtatttcagGCACCCAAGAGGAAGCAGCTGAAGCCTATGACATTGCTGCAATAAAATTCCGTGGGGTAAATGCCGTAACCAACTTTGATATAACAAGGTACGATGTGGA
- - - - - - - -cttatgg
- - - - - - - - - - - - -tggagct
- - - - - - - - - - - - - - - - - - - - - - ggtaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -atccaaa