Sequence
atgc intronic sequence ATGC exonic sequence...ggggacgagaattggttgtttataagcaagtcagtgagttttgtaagaattatatattgcttgggctgatgttcttgaactgcacacactcttgttgcagGTAAAGAAGAAACGTCCTGGGAGGGATGGGAAGATGGCGGGGCTGGTCCCCGTCCTCTATGTCAGTCAATCCTGATATTAACAACATATCTCCCAAGAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 26
lower sequence: GLYMA08G03020.1 (Glycine max), 3'ss of exon 25
-------------------------------------ggggacgagaattggttgtttataagcaagtcagtgagttttgtaagaattatatattgcttgggctgat--gttcttgaactgcacacactcttgttgcagGTAAAGAAGAAACGTCCTGGGAGGGATGGGAAGATGGCGGGGCTGGTCCCCGTCCTCTATGTCAGTCAATCCTGATATTAACAACATATCTCCCAAGAAA-
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gtaagtctctgatgagatatctatttttatcttgtctgaagtagagatttagataactagaatt---tgcatggattccttatgtttttaatcatacataggagaatcagttgttga-tagcatactttgccat-gcagGTTAAGAAGAAACGCCCTGGTAGGGATGGCAAGATGGCTGGACTGGTTCCTGTTTTATATGTTAGTCAATCTTGA-ATCATGTACGTAAGCTATTGTAACT
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 26
lower sequence: GLYMA05G36530.1 (Glycine max), 3'ss of exon 25
------------ggggacgagaattggttgtttat---aagcaag----tcagtgagttttgtaagaatta--tatattgcttgggctgatgttcttgaactg---------cacacactcttgt-tgcagGTAAAGAAGAAACGTCCTGGGAGGGATGGGAAGATGGCGGGGCTGGTCCCCGTCCTCTATGTCAGTCAATCCTGATATTAACAACATATCTCCCAAGAAA-
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gtaagtctttgatgagataacaatttgtatcttgtctgaagtagagatttaactagaatttacatggattccttatattttttaatcatacataggagaatcagttgttgatcgcatactttgccgtgcagGTTAAGAAGAAACGCCCTGGTAGGGATGGCAAGATGGCTGGACTGGTTCCTGTATTATATGTTACTCAATCTTGA-ATCATGTACGTAATCTGTTGTAACT
upper sequence: Vv07s0031g02090.t01 (Vitis vinifera), 3'ss of exon 26
lower sequence: AT2G07360.1 (Arabidopsis thaliana), 3'ss of exon 26
ggggacgagaattggttgtttataagcaagtcagtgagttttgtaagaattatatattgcttgggctgatgttcttgaactgcacacactcttgttgcagGTAAAGAAGAAACGTCCTGGGAGGGATGGGAAGATGGCGGGGCTGGTCCCCGTCCTCTATGTCAGTCAATCCTGATATTAACAACATATCTCCCAAGAAA-
|| | | ||| ||| | || ||||| ||| || | | | | || | | ||||| | | ||| |||||||||||||| || ||||| || ||||||||||||||||| || || || || || || |||| |||||| ||| ||| | | |||
----gtaagtagtaattggttactaa-aatcttgtgagga--gtagagctttttaaaaccgtaaactaaccgggatcaactg-ataaact---acgacagGTAAAGAAGAAGCGGCCTGGAAGAGATGGGAAGATGGCGGGACTTGTTCCTGTTCTATACGTCAATCAATCTTGA-ATTTTTGGGGAACGGCTTTAGACGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaattatatattgcttgggctgatgttcttgaactgcacacactcttgttgcagGTAAAGAAGAAACGTCCTGGGAGGGATGGGAAGATGGCGGGGCTGGTCCCCGTCCTCTATGTCAGTCAATCCTGATATTAACAACATATCTCCCAAGAAA
ggctgat putative branch site (score: 4)
ctcttgtt putative PPT
tatatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggggacgagaattggttgtttataagcaagtcagtgagttttgtaagaattatatattgcttgggctgatgttcttgaactgcacacactcttgttgcagGTAAAGAAGAAACGTCCTGGGAGGGATGGGAAGATGGCGGGGCTGGTCCCCGTCCTCTATGTCAGTCAATCCTGATATTAACAACATATCTCCCAAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
ggggacg
- - - - - - tggttgt
- - - - - - - - - - -ataagcaa
- - - - - - - - - - - - - - - - - - - - - - aagaatta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gggctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cacacac