Sequence
atgc intronic sequence ATGC exonic sequencegtaactgacaactatgcaagaccatgcagGACGTGATGTTTGGAGGAACCGAAACTGTTGCGTCGGGAATTGAGTGGGCAATGGCGGAGCTAATGAGAAGCCCAGACGACCTACGGCGCGTGCAGCAAG
Basic information
species | Glycine max |
transcript | GLYMA16G24330.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G24330.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os10g36848.1 (Oryza sativa), 3'ss of exon 1
-----------------------------------------------------------------------gtaactgacaactatgcaagaccatgcagGACGTGATGTTTGGAGGAACCGAAACTGTTGCGTCGGGAATTGAGTGGGCAATGGCGGAGCTAATGAGAAGCCCAGACGACCTACGGCGCGTGCAGCAAG
||| | ||| |||||||||||||||||| || || || || || || ||||||| || |||||||| ||||||||| | ||| ||||| |||||||| || ||||||||| | |
gtaaattttctagtctctgccactgattagaaatggagggaataataagtaaacaacaagtagtgtgagtaataagcaaaggtgatgacgtggcatgcagGACGTGATGTTCGGGGGGACGGAGACGGTGGCGTCGGCGATCGAGTGGGCGATGGCGGAGATGATGCACAGCCCCGACGACCTCCGCCGCGTGCAGGAGG
upper sequence: GLYMA16G24330.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G100158_T01 (Zea mays), 3'ss of exon 1
-----------------------------------------------------------------gtaa-ctgacaactatgca-agac----catgcagGACGTGATGTTTGGAGGAACCGAAACTGTTGCGTCGGGAATTGAGTGGGCAATGGCGGAGCTAATGAGAAGCCCAGACGACCTACGGCGCGTGCAGCAAG
|||| || | || ||| | ||| |||||||||||||||||| || || || || || || ||||||| || |||||||| ||||||||| | ||| ||||| |||||||| || || |||||||| |
gggtaatatgtacctcaccatcgcgtcgttatgtattttgttgttttttatgagcagtcaaagctgtaaactaataatgatgtatggacgccgcatgcagGACGTGATGTTCGGCGGGACGGAGACGGTGGCGTCGGCGATCGAGTGGGCCATGGCGGAGATGATGCACAGCCCCGACGACCTGCGCCGGGTGCAGCAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaactgacaactatgcaagaccatgcagGACGTGATGTTTGGAGGAACCGAAACTGTTGCGTCGGGAATTGAGTGGGCAATGGCGGAGCTAATGAGAAGCCCAGACGACCTACGGCGCGTGCAGCAAG
aactgac putative branch site (score: 2)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactgacaactatgcaagaccatgcagGACGTGATGTTTGGAGGAACCGAAACTGTTGCGTCGGGAATTGAGTGGGCAATGGCGGAGCTAATGAGAAGCCCAGACGACCTACGGCGCGTGCAGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG