Sequence
atgc intronic sequence ATGC exonic sequence...ctggtgattggtttttaaggtctttgtttctgttatttaaatttatttcttaagggttaattggttttagtttattaccacaagtgttctttacttttagGTCACAAGGGCAGACTACTTGAGCGGAAGGACAGCTCTACATTTTGCAGCGGTAAATGGGCATGTAAGATGCATAAGACTTGTAGTGGCTGACTTTGTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv16s0100g00690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G29590.1 (Glycine max), 3'ss of exon 3
ctggtgattggtttttaaggtctttgtttctgttatttaaatttatttcttaagggttaattggttttagtttattaccacaa-gtgttcttt--acttttagGTCACAAGGGCAGACTACTTGAGCGGAAGGACAGCTCTACATTTTGCAGCGGTAAATGGGCATGTAAGATGCATAAGACTTGTAGTGGCTGACTTTGTCC
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---ctaagtgcaacttgattgctttgtttgtatgtattgtcttctttttacatggtaaaagtagatttcgaaaatcactggactgtagtctattaaataacagGTTATAAGAGCTGATTATCTTAGTGGGAGGACAGCTCTTCACTTTGCAGCTGTGCATGGGCATGTAAGATGTATTAGACTTGTTGTGGCTGACTTTGTAC
upper sequence: Vv16s0100g00690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G38270.1 (Glycine max), 3'ss of exon 3
ctggtgattggtttttaaggtctttgtttctgt-tatttaaatttatttcttaagggttaattggtttt--agtttatta--ccacaagtgttctttacttttagGTCACAAGGGCAGACTACTTGAGCGGAAGGACAGCTCTACATTTTGCAGCGGTAAATGGGCATGTAAGATGCATAAGACTTGTAGTGGCTGACTTTGTCC
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----taaatgcaacttgattgctttgtttgtgtgtattttcttctttttacatggtaaaagttggtttcgaaaatcactagacttttagt-ctattaaattacagGTTATGAGAGCTGATTATCTTAGTGGGAGGACAGCTCTTCACTTTGCAGCTGTGCATGGGCATGTAAGATGTATTAGACTTGTTGTGGCTGACTTTGTAC
upper sequence: Vv16s0100g00690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA09G26560.1 (Glycine max), 3'ss of exon 3
ctggtgattggtttttaaggtctttgtttctgttatttaaatttattt-ctta-agggttaa--ttggttttagtttattaccacaa-gtgttctttacttt--tagGTCACAAGGGCAGACTACTTGAGCGGAAGGACAGCTCTACATTTTGCAGCGGTAAATGGGCATGTAAGATGCATAAGACTTGTAGTGGCTGACTTTGTCC
||| | || | |||| | | | |||| | | |||| | |||||| || |||| || || | | || | ||| | |||| | | ||||| || | ||||| ||||||||||| || |||||||| | |||||||||| ||||||||| || ||||| ||||| || ||||| |
-------ttgagtgggaaaggaattgtcgtcttcaagtgtatttttctacttacatggttaaagtttctttttaagaataactagactgtagcccttatgataacagGTTATGAAAGCAGATTATCTCAGCGGGAGGACAGCTCTTCACTTTGCAGCCATCAATGGGCATGCAAGATGCATTAGGCTTGTTGTGGCGGATTTTGTTC
upper sequence: Vv16s0100g00690.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G32090.1 (Glycine max), 3'ss of exon 3
ctggtgattggtttttaaggtctttgtttctgttatttaaatttatttcttaagggttaattggttttagtttattaccacaagtgttctttacttt----tagGTCACAAGGGCAGACTACTTGAGCGGAAGGACAGCTCTACATTTTGCAGCGGTAAATGGGCATGTAAGATGCATAAGACTTGTAGTGGCTGACTTTGTCC
|| ||| | | || ||| | | | | |||| | | || | || | |||| | || | | | | | | || |||| | ||||| || | ||||| ||||||||||| || |||||||| | |||||||||| ||||||||| || ||||| |||| || ||||| |
---atgggtgggaaaggaattgttgtcttcaagtgtattatcctatt-cacatggttaaagtttctttacaagaataactagactataactaatttgataacagGTTGTGAAAGCAGATTATCTCAGCGGTAGGACAGCTCTTCACTTTGCAGCCATCAATGGGCATGCAAGATGCATTAGGCTTGTCTTGGCAGATTTTGTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcttaagggttaattggttttagtttattaccacaagtgttctttacttttagGTCACAAGGGCAGACTACTTGAGCGGAAGGACAGCTCTACATTTTGCAGCGGTAAATGGGCATGTAAGATGCATAAGACTTGTAGTGGCTGACTTTGTCC
ggttaat putative branch site (score: 4)
tgttctttactttt putative PPT
ttaattggttttagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctggtgattggtttttaaggtctttgtttctgttatttaaatttatttcttaagggttaattggttttagtttattaccacaagtgttctttacttttagGTCACAAGGGCAGACTACTTGAGCGGAAGGACAGCTCTACATTTTGCAGCGGTAAATGGGCATGTAAGATGCATAAGACTTGTAGTGGCTGACTTTGTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - tgattgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccacaag