Sequence
atgc intronic sequence ATGC exonic sequencegtttgaaatacttaatcagtgcttccagtttactgattctaactttgttttcgatgagaagtgatcacagctttttctatagcgggtgagattttgattatcctcatgacagGTGAATCTTGTTGAATGGCTCAAGATGATGGTGGGGACAAGGAGAACTGAGGAAGTTGTCGACTCAAGGCTTGAAGTGAAACCATCAATACGTGCTTTAA
Basic information
species | Glycine max |
transcript | GLYMA08G42170.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G42170.1 (Glycine max), 3'ss of exon 5
lower sequence: AT3G59110.1 (Arabidopsis thaliana), 3'ss of exon 6
gtttgaaatacttaatcagtgcttccagtttactgattctaactttgttttcgatgagaagtgatcacagctttttctatagcgggtgagattttgattatcctcatgacagGTGAATCTTGTTGAATGGCTCAAGATGATGGTGGGGACAAGGAGAACTGAGGAAGTTGTCGACTCAAGGCTTGAAGTGAAACCATCAATACGTGCTTTAA
|| | | | | | | | ||| | | || ||| || | | || || | | | | | | || | || | || ||||||||||| || |||||||| ||||||||||| || ||||| ||| |||| |||||||| ||||||||| |||| ||| | | ||||||| | |
-----------------gtagcctaaaatatgtctgctttgtcaatgtatcc----aggagttatgaaaatgttaact-tggtg--ttaaaacatgtgt-tcttgttggcagGTGAATCTGGTCGAATGGCTAAAGATGATGGTTGGAACAAGAAGAGCTGAAGAAGTTGTTGACTCAAGGATTGAGCCTCCACCCGCTACACGTGCTCTGA
upper sequence: GLYMA08G42170.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G42960.1 (Arabidopsis thaliana), 3'ss of exon 5
gtttgaaatacttaatcagtgcttccagtttactgattctaactttgttttcg-atgagaagtgatcacagctttttctatagcgggtgagattttgattatcctcat-----gacagGTGAATCTTGTTGAATGGCTCAAGATGATGGTGGGGACAAGGAGAACTGAGGAAGTTGTCGACTCAAGGCTTGAAGTGAAACCATCAATACGTGCTTTAA
| || |||| ||| | || | | | |||||| | || ||| | | | | | || | | | | |||| || | | ||||||||||||||||||||||| ||||||||||| || ||||| ||| | || |||||||| || |||| |||||| | ||| | | ||||||| |
--------------gtgag-gctt--ggttaattggtcttgattttgttaatgtatcggaaaaagttatgaatatgttaatttcctg-aaactattgaacgggcttgtatattggcagGTGAATCTTGTTGAATGGCTAAAGATGATGGTTGGAACAAGAAGAGCAGAAGAAGTTGTGGATCCAAGACTTGAACCTAGACCTAGTAAAAGTGCTTTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaagtgatcacagctttttctatagcgggtgagattttgattatcctcatgacagGTGAATCTTGTTGAATGGCTCAAGATGATGGTGGGGACAAGGAGAACTGAGGAAGTTGTCGACTCAAGGCTTGAAGTGAAACCATCAATACGTGCTTTAA
ttttgat putative branch site (score: 4)
ttatcctc CT-rich tract
attttgattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgaaatacttaatcagtgcttccagtttactgattctaactttgttttcgatgagaagtgatcacagctttttctatagcgggtgagattttgattatcctcatgacagGTGAATCTTGTTGAATGGCTCAAGATGATGGTGGGGACAAGGAGAACTGAGGAAGTTGTCGACTCAAGGCTTGAAGTGAAACCATCAATACGTGCTTTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG