Sequence
atgc intronic sequence ATGC exonic sequence...catgtaattctttaatctgttagttattcatgtggatgaactatttttaatttttttaaagtcatcaataccatcttaaatgctaatggagcttctacagGTTAGGTTCCACCCAGTGCATCCTGAAATACTTGCAAGTGGGAGTTTAGATCATGAAGTTCGTATATGGGATGCAAATACTGCGGAGTGTATAGGATCTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g04630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G007229_T01 (Zea mays), 3'ss of exon 4
catgtaattctttaatctgttagttattcatgtggatgaactatttttaatttttttaaagtcatcaataccatcttaaatgctaatggagct-----tctacagGTTAGGTTCCACCCAGTGCATCCTGAAATACTTGCAAGTGGGAGTTTAGATCATGAAGTTCGTATATGGGATGCAAATACTGCGGAGTGTATAGGATCTC
||| | || ||| | ||||| | ||| || |||| || | | || || ||||| || | ||| | | | ||| | ||||| |||| || ||| | ||| |||| || || || || || ||||| ||||||||||||||| |||||||||| |||||| | || ||||| || || |
cat-tgtttattt--tttgttacaagaataaacaaatggtct-ttttgaactgtctttgcatc-ccaatatcacttaaaaaatttaagctgctaacatattgcagGTCAGGTATCATCCATTACATTCTGACATCCTGGCTAGCGGAAGTTTGGATCATGAAGTTCGTCTATGGGATGCTAATACTTCAGACTGTATTGGGTCAC
upper sequence: Vv07s0005g04630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G35370.3 (Glycine max), 3'ss of exon 4
--------catgtaattctttaatctgttagttattca-tgtggatgaactatttttaatttttttaaagtcatcaataccatcttaaatgctaatggagcttctacagGTTAGGTTCCACCCAGTGCATCCTGAAATACTTGCAAGTGGGAGTTTAGATCATGAAGTTCGTATATGGGATGCAAATACTGCGGAGTGTATAGGATCTC
| ||| | || | ||| || || || |||| | | | | | | | | || | || || || |||||| || |||||||||||||||| ||| |||| || | |||||||| |||||||| || ||||| ||||||||| |||||||||| || || | ||||| ||| |||||
ggcctttttgtctaaaattgtagtttgt--gtaatccaatgtgcacaatcc-tatgcactaatggtacactcccaaaattttaactatgtgctaacgg------tacagGTTAGGTTCCATCCATTGCACCCACATATACTTGCTAGTGGGAGCTTGGATCAAGAAGTTCGTTTATGGGATGCTAACACATCAGAGTGCATAATATCTC
upper sequence: Vv07s0005g04630.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G04140.2 (Arabidopsis thaliana), 3'ss of exon 4
-catgtaattctttaatctgttagttattcatgtggatgaactatttttaatttttttaaagtcatcaataccatcttaaatgctaatggagcttctacagGTTAGGTTCCACCCAGTGCATCCTGAAATACTTGCAAGTGGGAGTTTAGATCATGAAGTTCGTATATGGGATGCAAATACTGCGGAGTGTATAGGATCTC
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acttgcaatgaattaagttgattttggtttgcttaattagataatttcct-ttgcgttatatctactgctttaatatctaatgttattaagttctctacagGTCAGATTTCACCCGCGCCACTCAGAAATAGTTGCTAGTGGAAGTTTAGATCATGAGGTGCGCTTATGGAATGCAAAAACTGGGGAGTGTATCAGAACTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaatttttttaaagtcatcaataccatcttaaatgctaatggagcttctacagGTTAGGTTCCACCCAGTGCATCCTGAAATACTTGCAAGTGGGAGTTTAGATCATGAAGTTCGTATATGGGATGCAAATACTGCGGAGTGTATAGGATCTC
tgctaat putative branch site (score: 2)
cttctac putative PPT
tttttttaaagtcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catgtaattctttaatctgttagttattcatgtggatgaactatttttaatttttttaaagtcatcaataccatcttaaatgctaatggagcttctacagGTTAGGTTCCACCCAGTGCATCCTGAAATACTTGCAAGTGGGAGTTTAGATCATGAAGTTCGTATATGGGATGCAAATACTGCGGAGTGTATAGGATCTC
catgtaa
- - - - - - - - ctgttag
- - - - - - - - - - - - - - catgtgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aatacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctaatg