Sequence
atgc intronic sequence ATGC exonic sequencegtgaaattttatctgaatcttatttattagcacactagactatggtcatatactgaatcctaatgggtagtttttcttttgcagGAGCTTTTGATGGTGTGCTTGAGTTTTTGCTTCATTCGGGAAAAAGTCTTCCTGAAGCTGTTATGATGATGATTCCTGAAGCGTGGCAAAATGACAAGAA
Basic information
species | Glycine max |
transcript | GLYMA19G16450.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G16450.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv12s0055g00620.t01 (Vitis vinifera), 3'ss of exon 2
-----------------------------------------------------------------------------------gtgaaattt-------tatctgaatcttatttattagcacactagactatggtcatat--------actgaatcctaat-gggtagtttttcttttgcagGAGCTTTTGATGGTGTGCTTGAGTTTTTGCTTCATTCGGGAAAAAGTCTTCCTGAAGCTGTTATGATGATGATTCCTGAAGCGTGGCAAAATGACAAGAA
| |||| || |||||| | | |||| | | || |||| |||| | | | | | | ||| ||| ||||||||||||||| || |||||| || || ||| | || | |||||| || |||||||| ||||||||||| |||||||| |||||||||||||||||
gttagattgtaattcaacattttgtatatatatgcacagtcattgatatatatcaatacaagtatgaacccatgtgttttactatctaattcctatgaatacatgaatcattggtggaagcatgcaggtgcattttcatgccttttttaactggcttgtgtttgaattttgtttgctttatagGAGCTTTTGATGGCGTTCTTGAGCTTCTGGTTCGAGCAGGCAGAAGTCTCCCCGAAGCTGTCATGATGATGATACCTGAAGCATGGCAAAATGACAAGAA
upper sequence: GLYMA19G16450.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv07s0005g00530.t01 (Vitis vinifera), 3'ss of exon 1
-----------------------------------------------------------------------------------gtgaaattt-------tatctgaatcttatttattagcacactagactatggtcatat--------actgaatcctaat-gggtagtttttcttttgcagGAGCTTTTGATGGTGTGCTTGAGTTTTTGCTTCATTCGGGAAAAAGTCTTCCTGAAGCTGTTATGATGATGATTCCTGAAGCGTGGCAAAATGACAAGAA
| |||| || |||||| | | |||| | | || |||| |||| | | | | | | ||| ||| ||||||||||||||| || |||||| || || ||| | || |||||||| || |||||||| ||||||||||| |||||||| |||||||||||||||||
gttagattgtaattcaacattttgtatatatatgcacagtcattgatatatatcaatacaagtatgaatccatgtgttttactatctaattcctatgaatacatgaatcattggtggaagcatgcaggtgcattttcatgccttttttaactggcttgtgtttgaattttgtttgctttatagGAGCTTTTGATGGCGTTCTTGAGCTTCTGGTTCGAGCAGGTAAAAGTCTCCCCGAAGCTGTCATGATGATGATACCTGAAGCATGGCAAAATGACAAGAA
upper sequence: GLYMA19G16450.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv16s0098g00290.t01 (Vitis vinifera), 3'ss of exon 9
-----------------------------------------------------------------------------------gtgaaattt-------tatctgaatcttatttattagcacactagactatggtcatat--------actgaatcctaa-tgggtagtttttcttttgcagGAGCTTTTGATGGTGTGCTTGAGTTTTTGCTTCATTCGGGAAAAAGTCTTCCTGAAGCTGTTATGATGATGATTCCTGAAGCGTGGCAAAATGACAAGAA
| |||| || |||||| | | |||| | | || |||| |||| | | || | | ||| ||| ||||||||||||||| || |||||| || || ||| | || | |||||| || |||||||| ||||||||||| |||||||| |||||||||||||||||
gttagattgtaattcaacattttgtatatatatgcacagtcattgatatatatcaatacaagtatgaatccatgtgttttactatctaattcctatgaatacatgaatcattggtggaagcatgcaggtgcattttcatgccttttttaactggcttgtgtctgaattttgtttgctttatagGAGCTTTTGATGGCGTTCTTGAGCTTCTGGTTCGAGCAGGTAGAAGTCTCCCCGAAGCTGTCATGATGATGATACCTGAAGCATGGCAAAATGACAAGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcacactagactatggtcatatactgaatcctaatgggtagtttttcttttgcagGAGCTTTTGATGGTGTGCTTGAGTTTTTGCTTCATTCGGGAAAAAGTCTTCCTGAAGCTGTTATGATGATGATTCCTGAAGCGTGGCAAAATGACAAGAA
tcctaat putative branch site (score: 2)
tttttcttttgc putative PPT
tttttctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaaattttatctgaatcttatttattagcacactagactatggtcatatactgaatcctaatgggtagtttttcttttgcagGAGCTTTTGATGGTGTGCTTGAGTTTTTGCTTCATTCGGGAAAAAGTCTTCCTGAAGCTGTTATGATGATGATTCCTGAAGCGTGGCAAAATGACAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC