Sequence
atgc intronic sequence ATGC exonic sequence...cttcactaataccaatctccttgctgctttttagagggcattattggtgacactctgagcaagttcagcatctggggtttatacattaccttcgtgctagCAGTTGGACGTTTTATCAGATTACAATGTTCTGACTTGCGAATGAGAATTCCTTTTGAGAATCTTCCTTCTTGTGACAG
Basic information
species | Glycine max |
transcript | GLYMA19G42670.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G42670.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os01g29230.1 (Oryza sativa), 3'ss of exon 8
-----------------------------------------------------------------cttcactaataccaatctccttgct-gctttttagagggcattattggtgacactctgagcaagttcagcatctggggtttatacattaccttcgtgctagCAGTTGGACGTTTTATCAGATTACAATGTTCTGACTTGCGAATGAGAATTCCTTTTGAGAATCTTCCTTCTTGTGACAG
||| | ||| || | || | |||||| |||||| ||||||||||| || |||||||| |||||||| ||| |||| ||||||||||| ||| |||| |||| | | ||||| ||| | ||||| || ||
cttatattttatgataaaagcaatgtttattctattagctgttgcaacttccctgctaacaagtactttatatatatatatatatttatttgcttttcagAGGGTATTATTGGTGAAACACTGAGCAAATTCAGCATTTGGAGTTTGTACATTACCTTTGTGTTAGCTGTTGCAAGATTTATTAGACTGCAATGCTCAGA---------------------------------------------
upper sequence: GLYMA19G42670.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv14s0030g00180.t01 (Vitis vinifera), 3'ss of exon 5
---------------------------------------------------------------------------------------------------------cttcactaataccaatctccttgctgctttttagagggcattattggtgacactctgagcaagttcagcatctggggtttatacattaccttcgtgctagCAGTTGGACGTTTTATCAGATTACAATGTTCTGACTTGCGAATGAGAATTCCTTTTGAGAATCTTCCTTCTTGTGACAG
||| || | ||||| | || |||||||||| ||||||| || || ||||||||||| || |||||| | |||||||| || |||||||| ||||| || || |||||| | || ||||| ||
gtaagttctagaaataatgtgaaaatgattgttactcctgtctattttgcagtcatctatgcagatggaaggtatattgctcttcttttttctaccttcttcctccttttctgctgataatctg-tcatactccttcagAGGGCATTCTTGGTGAAACACTAAGCAAGTTCAGTATTTGGGGTCTCTACATTACTTTTGTGCTAGCTGTTGGCCGCTTCATCAGACTGCAGTGTTCAGA--------------------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtgacactctgagcaagttcagcatctggggtttatacattaccttcgtgctagCAGTTGGACGTTTTATCAGATTACAATGTTCTGACTTGCGAATGAGAATTCCTTTTGAGAATCTTCCTTCTTGTGACAG
ttaccttc CT-rich tract
tttatacatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttcactaataccaatctccttgctgctttttagagggcattattggtgacactctgagcaagttcagcatctggggtttatacattaccttcgtgctagCAGTTGGACGTTTTATCAGATTACAATGTTCTGACTTGCGAATGAGAATTCCTTTTGAGAATCTTCCTTCTTGTGACAG
cttcact
- - - - - - - - - ccttgct
- - - - - - - - - - - - - - - - - - ggcatta
- - - - - - - - - - - - - - - - - - - - - - tggtgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggggttt