Sequence
atgc intronic sequence ATGC exonic sequencegtagagtttttgttgatcacatggtgcttgtgtgatttttattttaagttttatttgatccgctctcttgcttcagGAACCCCTGCTCTTACTTCTAGAGGATTTGTTGAGAAGGATTTTGTTAAAGTAGCAGAATACTTTGACGCTGCTGTGACCGTGGCAGTGAAGATCAAGGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0211g00070.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA18G27710.1 (Glycine max), 3'ss of exon 14
--gtagagtttttgttgatcacatggtgcttgtgtgatttttattttaagttttatttgatccgctctcttgc-ttcagGAACCCCTGCTCTTACTTCTAGAGGATTTGTTGAGAAGGATTTTGTTAAAGTAGCAGAATACTTTGACGCTGCTGTGACCGTGGCAGTGAAGATCAAGGC
| | ||||||| | || | || | | ||||| || | ||| |||| | | | |||||||||||||||||||||||||||||||||||||||| ||||||||||||| |||||||| | |||||| || || |||| |||| |||||||| ||||
gtacaagctctttgttgcttctattataatttt-tatgttttaattca---cttacatgatttctcttgtggaattcagGAACCCCTGCTCTTACTTCTAGAGGATTTGTTGAGGAGGATTTTGTTAAGGTAGCAGAGTTCTTTGATGCAGCAGTGAAGTTGGCTGTGAAGATTAAGGG
upper sequence: Vv00s0211g00070.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA08G37270.1 (Glycine max), 3'ss of exon 13
--gtagagtttttgttgatcacatggtgcttgtgtgatttttattttaagttttatttgatccgctctcttgcttcagGAACCCCTGCTCTTACTTCTAGAGGATTTGTTGAGAAGGATTTTGTTAAAGTAGCAGAATACTTTGACGCTGCTGTGACCGTGGCAGTGAAGATCAAGGC
|| | ||||||| | | || | | || | | |||| || | | || |||||||||||||||||||||||||||||||||||||||| |||||||||| || |||||||| | ||||| || || |||| | || |||||||| ||||
gtacaggctctttgttgcttctgttaccatttttatgtcttcagtc--agttacatg-atttctcttgtggaattcagGAACCCCTGCTCTTACTTCTAGAGGATTTGTTGAGGAGGATTTTGTCAAGGTAGCAGAGTTTTTTGATGCAGCAGTGAAGATAGCTGTGAAGATTAAGGG
upper sequence: Vv00s0211g00070.t01 (Vitis vinifera), 3'ss of exon 13
lower sequence: GLYMA09G33480.1 (Glycine max), 3'ss of exon 13
--gtagagtttttgttgatc-acatggtgcttgtgtgatttttattt-taagttttatttgatccgctctcttg--cttcagGAACCCCTGCTCTTACTTCTAGAGGATTTGTTGAGAAGGATTTTGTTAAAGTAGCAGAATACTTTGACGCTGCTGTGACCGTGGCAGTGAAGATCAAGGC
||| || || |||| | | || || || || | ||||| | || || | | | ||| || ||||||||| ||||||||||||||||| ||||||| |||| |||||||||||| || ||||| | ||||| || ||||| | | || |||||||||||| |
gtatagggtcttcgttgttttatattttgattttggtgtcattattcatttacttgatcttaatagttctagtggatttcagGAACTCCTGCTCTTACTTCTAGGGGATTTGCTGAGGAGGATTTTGTTATGGTGGCAGAGTTTTTTGATGCAGCTGTAAATTTAGCTGTGAAGATCAAGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggtgcttgtgtgatttttattttaagttttatttgatccgctctcttgcttcagGAACCCCTGCTCTTACTTCTAGAGGATTTGTTGAGAAGGATTTTGTTAAAGTAGCAGAATACTTTGACGCTGCTGTGACCGTGGCAGTGAAGATCAAGGC
atttgat putative branch site (score: 5)
tccgctctcttgcttc CT-rich tract
ttgtgtgatttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagagtttttgttgatcacatggtgcttgtgtgatttttattttaagttttatttgatccgctctcttgcttcagGAACCCCTGCTCTTACTTCTAGAGGATTTGTTGAGAAGGATTTTGTTAAAGTAGCAGAATACTTTGACGCTGCTGTGACCGTGGCAGTGAAGATCAAGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA