Sequence
atgc intronic sequence ATGC exonic sequence...gaattttgtaaatatgcacaatacacaagttcaatactgaaacaaagacgagaggatttatattctcttttgtttcttatgattctctctccatgaacagTGTGGTGTCGGAGAACAGATGAGCTTGTTGATGGGCCTAATGCATCACACATAACCCCAACAGCCTTGGATAGGTGGGAGTCAAGGTTGGAAGATCTTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0079g00680.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os06g51290.3 (Oryza sativa), 3'ss of exon 2
gaattt-tgtaaatatgcacaatacacaagttcaatactgaaacaaagacgagaggatttatattctcttttgtttcttatgattctctctccatgaacagTGTGGTGTCGGAGAACAGATGAGCTTGTTGATGGGCCTAATGCATCACACATAACCCCAACAGCCTTGGATAGGTGGGAGTCAAGGTTGGAAGATCTTTT
||| | | ||| | || | |||| ||||| ||| | | | || | || | | | | | | || | | | ||||||||||| |||| |||||||||||||| ||||| || ||||| || ||||| || || ||||| |||| |||||||| ||| | || ||||| ||
aaatgaatatgaatccgtactactaacaatttcaa-acttttaaatgagctagttcaggcatgaattttgaaatctgatgtatacctttttttttttgcagTGTGGTGTAGGAGGACAGATGAGCTTGTAGATGGACCAAATGCCTCGCACATCACACCGTCAGCCCTGGACCGGTGGGAGAAGAGGCTTGATGATCTCTT
upper sequence: Vv04s0079g00680.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G300348_T04 (Zea mays), 3'ss of exon 2
gaattttgtaaat--atgcacaatacacaagttcaatactgaaacaaagacga----gaggatttatattctcttttgtttcttatgattctctctccatgaacagTGTGGTGTCGGAGAACAGATGAGCTTGTTGATGGGCCTAATGCATCACACATAACCCCAACAGCCTTGGATAGGTGGGAGTCAAGGTTGGAAGATCTTTT
||| || | | || | | | | | || || | | | | | | | || ||| | | | | | | ||||||||||| |||| |||||||||||||| |||||||| || || |||| || |||||||| ||||| |||||||| || | || ||||| ||
---ctttatagttcaaactaccctttaggaatatgaatctcaagtattggcaattttaaacgaacacttcaggcacggtatctgacgggtattgtttct---gcagTGTGGTGTAGGAGGACAGATGAGCTTGTAGATGGGCCAAACGCCAACTACATTACACCAACAGCTTTGGACCGGTGGGAGAAGAGACTTGAGGATCTGTT
upper sequence: Vv04s0079g00680.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G40720.1 (Glycine max), 3'ss of exon 3
----gaattttgtaaatatgcacaatacacaagttcaatactgaaacaaagacgagaggatttatattctcttttgtttcttatgattctctctccatgaacagTGTGGTGTCGGAGAACAGATGAGCTTGTTGATGGGCCTAATGCATCACACATAACCCCAACAGCCTTGGATAGGTGGGAGTCAAGGTTGGAAGATCTTTT
|||||| | ||| || | || ||| | ||| |||| || | | | || ||| | ||||| ||| || | ||||||||||| ||||||| ||||| ||||||||||| |||||||| ||||| || || ||||| || |||||||||||||| ||||| |||||||| |||||
acatatcttttgtcag-atg-actgtgcaagagtgctata-tgaagtaagaccaatttatctgatcaattctcaattgccttatagcgctccctgt-tattcagTGTGGTGTAGGAGAACGGATGAACTTGTTGATGGCCCTAATGCTTCACAAATTACACCAACTGCTTTGGATAGGTGGGAATCAAGATTGGAAGAACTTTT
upper sequence: Vv04s0079g00680.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G39050.1 (Glycine max), 3'ss of exon 3
----gaattttgtaaatatgcacaatacacaagttcaatactgaaacaaagacgagaggatttat--attctcttttgtttcttatgattctctctccatgaacagTGTGGTGTCGGAGAACAGATGAGCTTGTTGATGGGCCTAATGCATCACACATAACCCCAACAGCCTTGGA-TAGGTGGGAGTCAAGGTTGGAAGATCTTTT
|||||| | ||| | | || ||| | ||| |||| ||| | | | || |||||| ||| | | | || || | | ||||||||||| ||||||| ||||| ||||||||||| |||||||| ||||| || || ||||| || | | | ||||||||| ||||| |||||||| ||||
acatatcttttgtcag-atg-attgtgcaagagtgctata-tgaagcaagaccaatttatctgatcaattctcaattgccttatgttgctccctgttttt---cagTGTGGTGTAGGAGAACGGATGAACTTGTTGATGGTCCTAATGCTTCACAAATTACGCCAACTGCTTAGAAATAGGTGGGAATCAAGATTGGAAGAACTTT-
upper sequence: Vv04s0079g00680.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G17230.1 (Arabidopsis thaliana), 3'ss of exon 3
gaattttgtaaatatgcacaatacacaagttcaatactgaaacaaagacgagaggatttatattctcttttgtttctta---tgattctctctccatgaacagTGTGGTGTCGGAGAACAGATGAGCTTGTTGATGGGCCTAATGCATCACACATAACCCCAACAGCCTTGGATAGGTGGGAGTCAAGGTTGGAAGATCTTTT
| | ||| || | | | | ||| | || | || ||| || ||| || | | ||| ||| || |||| |||||| | ||||| ||||| ||||| |||||||| ||||| ||||| ||||| || | || || ||||| ||||| ||||||| |||||||||||
aggacatactagtatccaaagcatatgggg--aattttaaagttgttttcttatatgtttgattggtttgaatttgatagttttactctgtcttt-tgtgcagTTTGGTGTAGAAGAACTGATGAACTTGTGGATGGGCCAAATGCTTCACATATAACTCCCATGGCTTTAGATAGATGGGAAGCAAGGTTAGAAGATCTTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agacgagaggatttatattctcttttgtttcttatgattctctctccatgaacagTGTGGTGTCGGAGAACAGATGAGCTTGTTGATGGGCCTAATGCATCACACATAACCCCAACAGCCTTGGATAGGTGGGAGTCAAGGTTGGAAGATCTTTT
ttctcttttgtttctt CT-rich tract
atttatattctctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaattttgtaaatatgcacaatacacaagttcaatactgaaacaaagacgagaggatttatattctcttttgtttcttatgattctctctccatgaacagTGTGGTGTCGGAGAACAGATGAGCTTGTTGATGGGCCTAATGCATCACACATAACCCCAACAGCCTTGGATAGGTGGGAGTCAAGGTTGGAAGATCTTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - tatgcac
- - - - - - - - - - - acacaag
- - - - - - - - - - - - - - - - - - - -aaacaaa