Sequence
atgc intronic sequence ATGC exonic sequence...atatccaaaatgggcttctctgtactgctttcctctttagtaacactttcaccaagatagttttaaattttattttttgaattttttatattttgtgcagCGGATGGGTTTGTTGTCCAAACTGGTGATCCTGAAGGACCTGCTGAGGGTTTTATTGATCCAAGTACAGAGAAAATCAGGACAATACCATTAGAAATTAC
Basic information
species | Glycine max |
transcript | GLYMA13G23850.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G23850.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os08g29370.1 (Oryza sativa), 3'ss of exon 4
atatccaaaatgggcttctct-gtactgctttcctctttagtaacactt--tcaccaagatagttttaaattttattttttgaattttttata---ttttgtgcagCGGATGGGTTTGTTGTCCAAACTGGTGATCCTGAAGGACCTGCTGAGGGTTTTATTGATCCAAGTACAGAGAAAATCAGGACAATACCATTAGAAATTAC
|| || ||||| || | || | | ||||| | ||| | || || | | | |||| | | |||| | || |||||| ||||| |||||||| |||||||| |||||||| ||||| |||||||| ||||||||||| ||||| | ||| | | |||||||| | || | |
------tgaagaagcctctctagttgttctctgttatttaggattgagaagtcagaaccttaattatctagtgagcttttgttaactattatcggttcttttgcagCTGATGGTTTTGTTGTTCAAACTGGCGATCCTGAGGGACCAGCTGAGGGATTTATTGATCCCAGTACTGGTAAAGTTCGTACAATACCTCTTGAGTTAAT
upper sequence: GLYMA13G23850.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv14s0066g01410.t01 (Vitis vinifera), 3'ss of exon 4
atatccaaaatgggcttctctgtactgctttcctc-tttagtaacactttcaccaagatagttttaaattttattttttgaattt----tttatattttgt-gcagCGGATGGGTTTGTTGTCCAAACTGGTGATCCTGAAGGACCTGCTGAGGGTTTTATTGATCCAAGTACAGAGAAAATCAGGACAATACCATTAGAAATTAC
| | | || | | || || | ||| || | || | | || ||| || | || | |||| |||||| ||||| ||||| |||||||| |||||||| |||||||| || ||||| ||||| |||||||||||||||||||| || | ||||| ||||| | ||||| |
------actactgcctccatcatgcttagttgataatttcatattgtatacaatgctaagttgatagttttctttcgataaaactcagatttactttttgttgcagCTGATGGATTTGTTGTTCAAACTGGAGATCCTGAGGGTCCTGCAGAGGGCTTTATTGATCCAAGTACAGAAAAGCCCCGGACAGTACCACTTGAAATCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttcaccaagatagttttaaattttattttttgaattttttatattttgtgcagCGGATGGGTTTGTTGTCCAAACTGGTGATCCTGAAGGACCTGCTGAGGGTTTTATTGATCCAAGTACAGAGAAAATCAGGACAATACCATTAGAAATTAC
atagttttaaatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatccaaaatgggcttctctgtactgctttcctctttagtaacactttcaccaagatagttttaaattttattttttgaattttttatattttgtgcagCGGATGGGTTTGTTGTCCAAACTGGTGATCCTGAAGGACCTGCTGAGGGTTTTATTGATCCAAGTACAGAGAAAATCAGGACAATACCATTAGAAATTAC
- atccaaa
- - - - - - -gcttctc
- - - - - - - - - - - - -tgctttc
- - - - - - - - - - - - - - - - - - - - - - - - tcaccaa