Sequence
atgc intronic sequence ATGC exonic sequencegtacaaattgattgtagcctctaggttttagttctgctttgtttcacaattttcaattcacattgaagctgtccatgccctgattttcttagtatcaatacctttgtgttaaaatgaatttttattaacagGCGCATAGTGCTTATCGTGGAATTGGTATTGTGAAATTGATGGGACGTAGCAGTGGATTTATAACCATGCAAGCATCCCTAGCTAGTGGACAAATTGATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0199g00220.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G38450.1 (Glycine max), 3'ss of exon 8
gtacaaattgattgtagcctctaggttttagttctgctttgtttcacaattttcaattcacattgaagctgtccatgccctgattttcttagtatcaatacctttgtgttaaaatgaatttttattaacagGCGCATAGTGCTTATCGTGGAATTGGTATTGTGAAATTGATGGGACGTAGCAGTGGATTTATAACCATGCAAGCATCCCTAGCTAGTGGACAAATTGATA
| ||| || | | || | || || | | || | | ||| | | ||| | || ||| | | ||| | | | | | | | | | || |||| |||||||| |||| ||||||||| |||||||||||||||| |||||||||||||| ||| | ||||||||||||||| |||||||||| |||| |
--gtatattacttattgagtc---atgttgactcagttca--ttgatagtttcttgtcagtactga--cagtacata---------ttaaaatatttacatttctttcctta--------tcttttgctagGCACATAGTGCATATCATGGAATTGGCGTTGTGAAATTGATGGGCCGTAGCAGTGGATTCATAGCAATGCAAGCATCCCTATCTAGTGGACAGGTTGACA
upper sequence: Vv00s0199g00220.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA18G21720.1 (Glycine max), 3'ss of exon 9
gtacaaattgattgtagcctctaggttttagttctgctttgtttcacaattttcaattcacattgaagctgtccatgccctgatt-ttcttagtatcaatacctttgtgttaaaatgaa------tttttattaacagGCGCATAGTGCTTATCGTGGAATTGGTATTGTGAAATTGATGGGACGTAGCAGTGGATTTATAACCATGCAAGCATCCCTAGCTAGTGGACAAATTGATA
| | | || || | ||| |||| | || ||| | || || | |||| | | | | | ||||||| | || | | |||| |||||||| |||| ||||||||| |||||||||||||||| |||||||||||||| ||| | |||||||||||||| |||||||||| |||| |
--------------------------------------gtatattacttattctgagtcatgttgactcagttcattgatagtttcttgtcagtactgacag-tatatattaaaatatttacacttcttcccttatagGCACATAGTGCATATCATGGAATTGGGGTTGTGAAATTGATGGGCCGTAGCAGTGGATTCATAGCAATGCAAGCATCCCTGTCTAGTGGACAGGTTGACA
upper sequence: Vv00s0199g00220.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA01G03040.1 (Glycine max), 3'ss of exon 8
gtacaaattgattgtagcctctaggttttagttctgctttgtttcacaattttcaattcacattg--aagctgtccatgccctgattttcttag-tatcaatacctttgtgttaaaatgaatttttattaacagGCGCATAGTGCTTATCGTGGAATTGGTATTGTGAAATTGATGGGACGTAGCAGTGGATTTATAACCATGCAAGCATCCCTAGCTAGTGGACAAATTGATA
| || || ||| || | | | | || || | || || | || || || ||| | | ||| | | | | | ||| |||| |||||||| |||| ||||||||||||||||||||||||||| ||| ||||||||| ||| | ||||| || || ||||||||||||| ||||| |
---------------------------------gtaaattacttgaca-ttctgagtcgattttactaaacagtg-atattttcatgttggtaaatattacaatatttacat--atcttccctcattttattagGCACATAGTGCATATCATGGAATTGGTATTGTGAAATTGATGGGCCGTGACAGTGGATTCATAGCAATGCATGCTACCTTAGCTAGTGGACAGATTGACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gccctgattttcttagtatcaatacctttgtgttaaaatgaatttttattaacagGCGCATAGTGCTTATCGTGGAATTGGTATTGTGAAATTGATGGGACGTAGCAGTGGATTTATAACCATGCAAGCATCCCTAGCTAGTGGACAAATTGATA
ccctgat putative branch site (score: 4)
tttttatt putative PPT
tttgtgttaaaatgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacaaattgattgtagcctctaggttttagttctgctttgtttcacaattttcaattcacattgaagctgtccatgccctgattttcttagtatcaatacctttgtgttaaaatgaatttttattaacagGCGCATAGTGCTTATCGTGGAATTGGTATTGTGAAATTGATGGGACGTAGCAGTGGATTTATAACCATGCAAGCATCCCTAGCTAGTGGACAAATTGATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA