Sequence
atgc intronic sequence ATGC exonic sequence...tgaagatggttgttttttatccttatttgccaaagacatgtatagttggatattgggtttatttaaattttgtgatggctatctttcttgcattctgcagACACTCAACACCAGTTTAATGCACGAGAAAGTGATTGGGGTTTCACTTCTTTTATGCCTCTTAGTGAACTATACGATCCAGGTAGGGGTTTTCTTGTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os12g30540.1 (Oryza sativa), 3'ss of exon 4
tgaagatggttgttttttatccttatttgccaaagacatgtatagttggatattgggtttatttaaattttgtgatggctatctttcttgcattctgcagACACTCAACACCAGTTTAATGCACGAGAAAGTGATTGGGGTTTCACTTCTTTTATGCCTCTTAGTGAACTATACGATCCAGGTAGGGGTTTTCTTGTGAG
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tggatattgagaacttctaattttttctatacgtggaaataatgaaagccttttgtattagcagcgattgacttgcacatgttgcttacatgtttggcagATACTCAACATCAATTTAATGCACGTGAGAGTGACTGGGGTTTCACATCTTTTATGCCTTTGAGTGATCTGTATGACCCAAGTAGGGGCTACCTTGTTAA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g56490.1 (Oryza sativa), 3'ss of exon 4
tgaagatggttgttttttatccttatttgc-caaagacatgtatagttggatattgggtttatttaaattttgtgatggctatc-------tttcttgcattctgcagACACTCAACACCAGTTTAATGCACGAGAAAGTGATTGGGGTTTCACTTCTTTTATGCCTCTTAGTGAACTATACGATCCAGGTAGGGGTTTTCTTGTGAG
| |||||||| | || | | | | | || || | || | || || | | ||| || ||| | || |||| | ||| || || | | | || |||||||||||||| |||||||||||||||| | | | || ||||| ||||| || |||| | ||||||
--------atagttttttaattcaacttacatataaagctttagttttaagcacaatactttatgaatttcaccagtcgttattcatgagtttccttcccctccacagAAGCAGCACATCATTTCAGTACTCGGGAAAGTGATTGGGGCTTCACTTCTTTTATGCATTTAGGAGATCTATATGATCCGACTAAAGGTTATATTGTGAA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G014805_T01 (Zea mays), 3'ss of exon 4
-tgaagatggttgttttttatccttatttgccaaagacatgtatagttggatattgggt-ttatttaaattttgtgatggctatctttcttgcattctgcagACACTCAACACCAGTTTAATGCACGAGAAAGTGATTGGGGTTTCACTTCTTTTATGCCTCTTAGTGAACTATACGATCCAGGTAGGGGTTTTCTTGTGAG
|| || || |||||| || ||| || | | | | | | | | | | | || || || | | | || || ||||| ||||| ||||| ||||||||||| || || || ||||||||||| || ||||||||| | ||||| ||||| || ||| | ||||| | ||||||||
tataatatccttattttttttctttagttac--attatgtttctcactatttctggaatatttcttttggttgaatctatatgttggtcccatgtttggcagATACTCAGCACCAATTTAATGCACGTGAGAGCGACTGGGGTTTCACATCATTTATGCCTTTGAGTGACCTATATGACCCAAGCAGGGGCTATCTTGTGAA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G11300.1 (Glycine max), 3'ss of exon 4
tgaagatggttgttttttatccttatttgccaaagacatgtatagttggatattgggtttattta-aattttgtgatggct--atctttcttgcattctgcagACACTCAACACCAGTTTAATGCACGAGAAAGTGATTGGGGTTTCACTTCTTTTATGCCTCTTAGTGAACTATACGATCCAGGTAGGGGTTTTCTTGTGAG
|| | |||||||| | | | || | | || || |||| ||||| || | ||| | ||| || || || || | ||||||||| || ||||||||||||||||| |||||||||||||||||||| ||||| ||||||||| ||||| | || ||||| |||| || | ||||||||
--tcaattatatttttttattaaaagaggaagtgaaagtgcacaattt-attttggatttatctatgaccttggtgtagcttaattttatttacactatgcagACACACAGCACCAGTTTAATGCACGCGAAAGTGATTGGGGTTTCACATCTTTCATGCCTCTTGGTGAATTGTATGATCCTAGTAGAGGGTATCTTGTGAA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G16170.1 (Glycine max), 3'ss of exon 4
tgaagatggttgttttttatccttatttgccaa--agacatgtatagttggatattgggtttattta--aattttgtgatggcta-tctttcttgcattctgcagACACTCAACACCAGTTTAATGCACGAGAAAGTGATTGGGGTTTCACTTCTTTTATGCCTCTTAGTGAACTATACGATCCAGGTAGGGGTTTTCTTGTGAG
||| || |||||| | | | || | || | | || | |||| ||||| || | || || | | || | || || | | ||||||||| || ||||||||||||||||| |||||||||||||||||||| || || ||||||||| ||||| | || ||||| |||| || | |||||||
----gattatttttttttttattaaaagaggaagtgaaagtgcacaattcttt-ttggatttatctatgaccttggtcaagcttaattttatttatactatgcagACACACAGCACCAGTTTAATGCACGTGAAAGTGATTGGGGTTTCACATCCTTCATGCCTCTTGGTGAATTGTATGATCCTAGTAGAGGGTATCTTGTGCA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA14G04890.1 (Glycine max), 3'ss of exon 4
----tgaagatggttgttttttatccttatttgccaaagacatgtatagttggatattgggtttatttaaat--tttgtgatggctatctttcttgcattctgcagACACTCAACACCAGTTTAATGCACGAGAAAGTGATTGGGGTTTCACTTCTTTTATGCCTCTTAGTGAACTATACGATCCAGGTAGGGGTTTTCTTGTGAG
| || | | || | | ||| || ||||| || | | ||||| || || ||| ||| | || |||||| || ||||| || ||||| || |||||||||||||||||||| ||||| ||||| ||| ||||| | || ||||| |||| || | ||||||||
tttaccatgaaacagaagtgacaggggaataaagtggaaatgctcataattt----ttgggcatagccatgtgctttgtcataacttcattttatgc--tatgtagACACACAGCACCAATTCAATGCGCGGGAAAGTGATTGGGGTTTCACATCTTTCATGCCGCTTGGTGAATTGTATGATCCTAGTAGAGGGTATCTTGTGAA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G43930.1 (Glycine max), 3'ss of exon 4
----tgaagatggttgttttttatccttatttgccaaagacatgtatagttggatattgggtttatttaaattttgtgatggctatctttcttgcattctgcagACACTCAACACCAGTTTAATGCACGAGAAAGTGATTGGGGTTTCACTTCTTTTATGCCTCTTAGTGAACTATACGATCCAGGTAGGGGTTTTCTTGTGAG
| || | | || || | ||| || ||||| || | | | || | | || || | || |||||| || ||||| || ||||| || |||||||||||||||||||| ||||| ||||| ||| ||||| | || ||||| |||| || | ||||||||
tttaccatgaaacagaagtaacaggggaataaaatgaaaatgctcataattt----ttgggcatagccatgtgctttgtcataacttcattttacactatgtagACACACAGCACCAATTCAATGCGCGGGAAAGTGATTGGGGTTTCACGTCTTTCATGCCACTTGGTGAATTGTATGATCCTAGTAGAGGGTATCTTGTGAA
upper sequence: Vv06s0009g00960.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: PP1S104_2V6.1 (Physcomitrella patens), 3'ss of exon 4
tgaagatggttgttttttatccttatt-tgccaaa-gacatgtatagttg-gatattgggtttattta-aattttgtgatggctatctttcttgcattctgcagACACTCAACACCAGTTTAATGCACGAGAAAGTGATTGGGGTTTCACTTCTTTTATGCCTCTTAGTGAACTATACGATCCAGGTAGGGGTTTTCTTGTGAG
||| | || || || | ||||| || |||| || || | || | || ||||| | | | || | | | || | | | |||||| |||||||| ||||| ||||| ||||||||||||||||||||||| || || ||||| || ||| |||| |||| | | |||||||| ||||
--gagaggattcttaattgtatttattgtgacaaacgatttggtttgtggtgaggttgggggattccacggtcttatatttcccatgg--cgacctatttgcagATACTCAACATCAGTTCAATGCTCGAGAAAGTGATTGGGGTTTCACCTCATTCATGCCACTACATGAGTTATATGATCTATCGAAAGGTTTTCTGGTGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttggatattgggtttatttaaattttgtgatggctatctttcttgcattctgcagACACTCAACACCAGTTTAATGCACGAGAAAGTGATTGGGGTTTCACTTCTTTTATGCCTCTTAGTGAACTATACGATCCAGGTAGGGGTTTTCTTGTGAG
tctttcttgcattct CT-rich tract
tattgggtttatttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaagatggttgttttttatccttatttgccaaagacatgtatagttggatattgggtttatttaaattttgtgatggctatctttcttgcattctgcagACACTCAACACCAGTTTAATGCACGAGAAAGTGATTGGGGTTTCACTTCTTTTATGCCTCTTAGTGAACTATACGATCCAGGTAGGGGTTTTCTTGTGAG
- - - tggttgt
- - - - - - - - - - - - - - - caaagac
- - - - - - - - - - - - - - - - - - - - - tagttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gtgatgg