Sequence
atgc intronic sequence ATGC exonic sequencegtatatttgttgagactagcacacttgattagtttttaatattgaaattttatgaaactgatcattgcactttctggcttcttcacttgtgttcaatagACTGCAAGGGAGAAAGCATTGGCTTCATTTACATCTCTTTCAAGTGGTATTCTTCTATGTACCGATGTTGCAGCTCGTGGACTTGACATTCCTGGCGTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g01900.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os01g07080.2 (Oryza sativa), 3'ss of exon 5
gtatatttgttgagacta-gcacacttgattagtttttaatattgaaattttatgaaactgatcattgcact--ttctggcttcttcactt--gtgttcaatagACTGCAAGGGAGAAAGCATTGGCTTCATTTACATCTCTTTCAAGTGGTATTCTTCTATGTACCGATGTTGCAGCTCGTGGACTTGACATTCCTGGCGTTG
|| ||| | || | ||||| ||| | | || | || | || || | | ||| || | | | || || | ||| | | |||||||| ||||| |||||| || |||| |||||||||||||| | || || ||||||||||| | || |||||||| || ||||
-----gttacagagctaatacatgcatgatttgttgt--acatggcgcttcca-aaagctttccttcatactgattgctaccgcgctattttcctggtatgtagGGCCCTCGTGAGAAAGCTTTGGCATCATTTTCAGCTCTCTCAAGTGGTATTCTAGTTTGCACTGATGTTGCAGCAAGGGGTCTTGACATACCACATGTTG
upper sequence: Vv13s0067g01900.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G02760.1 (Glycine max), 3'ss of exon 5
-----------------------------------------------gtatatttgttgagactagcaca--cttgattagtttttaatattgaaattttatgaaactgatcattgcactttctggcttcttcacttgtgttcaatagACTGCAAGGGAGAAAGCATTGGCTTCATTTACATCTCTTTCAAGTGGTATTCTTCTATGTACCGATGTTGCAGCTCGTGGACTTGACATTCCTGGCGTTG
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gtatagttttggcctttttggatgttagcatttttctatatcgaagcataatattctataaatcagcattgtttttcttatttcccattattttgtcagtgtcttaccgtttac-atatttgattatttatttattt-tgccttatagTCTGCCAGGGAGAAAGCACTAGCTTCATTTACATCCCTTTCAAATGGAATTCTTCTATGTACGGATGTTGCAGCACGTGGACTGGACATACCAGGTGTAG
upper sequence: Vv13s0067g01900.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G35640.1 (Glycine max), 3'ss of exon 5
------------------------------------gtatatttgttga--gactagcac--acttgattagtttttaatattgaaattttatgaaactgatcattgcactttctggcttcttcacttgtgttcaatagACTGCAAGGGAGAAAGCATTGGCTTCATTTACATCTCTTTCAAGTGGTATTCTTCTATGTACCGATGTTGCAGCTCGTGGACTTGACATTCCTGGCGTTG
| ||| | | | | ||||| || || || | |||| | | |||| | | || | | || || | || ||| |||| |||| |||||||||||| | |||||||||||| | ||||||| ||| |||||||||||||| |||||||| || |||||||||||||| || || || |
gtatagttttggatgttagcatttttcaatattgaagcataatattctattaattagcattgtttttcttttttcccattattttgtcagtgtcttactgtttac-atacatgattatttatttattt-tgtcatatagTCTGCCAGGGAGAAAGCACTAGCTTCATTTACAACCCTTTCAAATGGAATTCTTCTATGTACAGATGTTGCTGCACGTGGACTTGACATACCGGGTGTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaattttatgaaactgatcattgcactttctggcttcttcacttgtgttcaatagACTGCAAGGGAGAAAGCATTGGCTTCATTTACATCTCTTTCAAGTGGTATTCTTCTATGTACCGATGTTGCAGCTCGTGGACTTGACATTCCTGGCGTTG
aactgat putative branch site (score: 3)
ttatgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatttgttgagactagcacacttgattagtttttaatattgaaattttatgaaactgatcattgcactttctggcttcttcacttgtgttcaatagACTGCAAGGGAGAAAGCATTGGCTTCATTTACATCTCTTTCAAGTGGTATTCTTCTATGTACCGATGTTGCAGCTCGTGGACTTGACATTCCTGGCGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC