Sequence
atgc intronic sequence ATGC exonic sequence...tgtcagacttctcagtagcattctgtactttaaattattttctgggtaaatgcaaagaggactctatctgatcattgttcttgtcttggagagactgcagGTTGTGTAACCTTGACATCATTACTTGTGTACAGCAAGTCATTTGCTTTGCCTTCCATGACAGCAAGTTGCTGATGGAAACATGTCAAGAGGCCAGAAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0042g00120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g23680.3 (Oryza sativa), 3'ss of exon 4
tgtcagacttctcagtagcattctgtactttaaattattttctgggta--aatgcaaagaggactc-tatctgatcattgttcttgtcttggagagactgcagGTTGTGTAACCTTGACATCATTACTTGTGTACAGCAAGTCATTTGCTTTGCCTTCCATGACAGCAAGTTGCTGATGGAAACATGTCAAGAGGCCAGAAAC
| | | | | | | | | || ||| | | | | || ||||| || | | | || | | || | | | | | | |||||| || ||| | |||||||| | || || || || ||||| ||||| ||||||||||||||| |||||||||| || || || ||||||| ||
--ccttaatccactggctcctgc-ataaacaaaacattctaatagctactggtgcaattagaattagcagctattggtgcttaatatgtatcacaatattcagGTTATGCAACATGGACATCATCTCGAAGGTCCAACAGGTGATTTGTTTTGCATTCCATGACAGCAAGCTGCTGATGGAGACCTGCCAGGAGGCCAAGAAT
upper sequence: Vv10s0042g00120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G022090_T02 (Zea mays), 3'ss of exon 3
----tgtcagacttctcagtagcattctgtactttaaattattttctgggtaaatgcaaagaggactctatctg-atcattgttcttgtcttggagagactgcagGTTGTGTAACCTTGACATCATTACTTGTGTACAGCAAGTCATTTGCTTTGCCTTCCATGACAGCAAGTTGCTGATGGAAACATGTCAAGAGGCCAGAAAC
|| ||| ||| ||| | || | |||| | | | | || | || | | | || || | | || | || |||||| || || | |||||||| | || || || || || ||||| || ||||||||||||||| |||||||||||||||| || ||||||| |||
ggattgaaagaggagtcacatttatttttatctctgtattaatatgt-----attgtgactagaataccacctttatatctagtggcaactgttgcaatcttcagGTTATGCAATATGGACATCATCTCCAAGGTCCAACAGGTGATCTGCTTCGCGTTCCATGACAGCAAGCTGCTGATGGAAACATGCCAGGAGGCCAAGAAC
upper sequence: Vv10s0042g00120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G00330.1 (Glycine max), 3'ss of exon 5
tgtcagacttctcagtagcattctgtactttaaattattttctgggtaaatgcaaagaggactctatctgatcattgttcttgtcttggagagac-tgcagGTTGTGTAACCTTGACATCATTACTTGTGTACAGCAAGTCATTTGCTTTGCCTTCCATGACAGCAAGTTGCTGATGGAAACATGTCAAGAGGCCAGAAAC
|| | | | || ||| | | ||| | | | || | | | | | | | ||| ||| | | | | || |||||| | ||||| | || |||||| | || |||||||||||||||||||| |||||||| || | |||||| |||||||| |||||||| || | |||
tgcaggctatattgttattattattttttttttgagaaagt-tatgttattactgggtaaagattggggagttatttttccttccattgtttcacatgcagGCTATGTAATATGGATATCATTTCGCACGTGCAGCAAGTCATTTGCTTTGCTTTCCATGATAGTAGGTTGCTCATGGAAACTTGTCAAGAAGCAAAAAAT
upper sequence: Vv10s0042g00120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA07G40350.2 (Glycine max), 3'ss of exon 5
-tgtcagacttctcagtagcattctgtactttaaattattttctgggtaaatgcaaagaggactctatctgatcattgttcttgtcttggagagac-tgcagGTTGTGTAACCTTGACATCATTACTTGTGTACAGCAAGTCATTTGCTTTGCCTTCCATGACAGCAAGTTGCTGATGGAAACATGTCAAGAGGCCAGAAAC
|| | | | | || ||| | | ||| | | | || | |||| | || | | || ||| || | | | | || |||||| | ||||| | || |||||| | || |||||||||||||||||||| |||||||| || |||||| |||||||| |||||||| || | |||
atgcaggctatattattattattttttgttttgagaaagctatgttgttattgcagtaaagattgggcc--attattttttcttccattgtttcacatgcagGCTATGTAATATGGATATCATTTCGCACGTGCAGCAAGTCATTTGCTTTGCTTTCCATGATAGTCGGTTGCTCATGGAAACTTGTCAAGAAGCAAAAAAT
upper sequence: Vv10s0042g00120.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: EFJ38716 (Selaginella moellendorffii), 3'ss of exon 4
tgtcagacttctcagtagcattctgtactttaaattattttctgggtaaatgcaaagaggactctatctgatcattgttcttgtcttggagagactgcagGTTGTGTAACCTTGACATCATTACTTGTGTACAGCAAGTCATTTGCTTTGCCTTCCATGACAGCAAGTTGCTGATGGAAACATGTCAAGAGGCCAGAAAC
| || | |||| ||| | |||| | | ||| || | | | | || || | | | | ||| ||||| || | ||||| || | |||||||| |||||||| ||||||||||||||||||| || || ||||||||||| || |||| |
-----------------gtgttttcgtctttccattttcttctttgctcaagcatcgatg-ttttctttggcttctgacc--accgggcttgctttccagATTGTGCAATATGGACATTCTTTCACACGTACAGCAGGTCATTTGTTTTGCCTTCCATGACAGCAGATTACTCATGGAAACATGCAGCGAAGCCAAGAGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaaatgcaaagaggactctatctgatcattgttcttgtcttggagagactgcagGTTGTGTAACCTTGACATCATTACTTGTGTACAGCAAGTCATTTGCTTTGCCTTCCATGACAGCAAGTTGCTGATGGAAACATGTCAAGAGGCCAGAAAC
atctgat putative branch site (score: 4)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtcagacttctcagtagcattctgtactttaaattattttctgggtaaatgcaaagaggactctatctgatcattgttcttgtcttggagagactgcagGTTGTGTAACCTTGACATCATTACTTGTGTACAGCAAGTCATTTGCTTTGCCTTCCATGACAGCAAGTTGCTGATGGAAACATGTCAAGAGGCCAGAAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - -cttctca
- - - - - - - - -gcattct
- - - - - - - - - - - - - - - - - - - tttctgg
- - - - - - - - - - - - - - - - - - - - - - - - aatgcaa