Sequence
atgc intronic sequence ATGC exonic sequencegtttgctatctgactttttcttccccttcatactcttactcttatttcttgtaatataattatttgatcgcttttatgcagACTATTGGTCAAGCATATGAAGATATGCAGACACAGAACCAAAATCTGTTGGACCAGGTGATCGAGAGGGATGACTATAATATTAAG
Basic information
species | Glycine max |
transcript | GLYMA02G43490.1 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G43490.1 (Glycine max), 3'ss of exon 15
lower sequence: LOC_Os10g41590.1 (Oryza sativa), 3'ss of exon 14
gtttgctatctgactttttcttccccttcatactcttactcttatttcttgtaatataattatttgatcgcttttatgcagACTATTGGTCAAGCATATGAAGATATGCAGACACAGAACCAAAATCTGTTGGACCAGGTGATCGAGAGGGATGACTATAATATTAAG
|| || | ||| ||||| | | || | | | | | | |||| || || |||| | ||||||| |||||||||||||||||||| ||||| || || || || | || | | ||||| || || ||||| | ||| || |||
gtaggcg---cggttttctcttcttatcagcagtcctttttgtgtgt---gaaataaaagcatatgatattgtcattgcagACAATTGGTCAAGCATATGAAGACATGCAAACCCAAAATCAGCACCTTCTTCAACAGGTTGCTGATAGAGATGATTTTAACATAAAG
upper sequence: GLYMA02G43490.1 (Glycine max), 3'ss of exon 15
lower sequence: AT1G55250.4 (Arabidopsis thaliana), 3'ss of exon 4
-----gtttgctatctgactttttcttccccttca-tactcttact---cttatt-----tcttgtaatataattatttg------atcgcttttatgc------agACTATTGGTCAAGCATATGAAGATATGCAGACACAGAACCAAAATCTGTTGGACCAGGTGATCGAGAGGGATGACTATAATATTAAG
| | |||| ||| | | || | | ||||| ||||| ||| | | || | | | ||| | | | | ||||||| |||||||| |||||||| |||||||||||||||||| || ||||| | |||||| ||| |||| || |||||||| |||
gtacaatcatccttctgctcgtttttcctattttaatgttcttaaggagtttattagaaatctgaaagtcgaaatgctcgtttctcatcaatactttacttctctagACTATAGGTCAAGCCTATGAAGACATGCAGACACAGAACCAACATTTGTTGCAGCAGGTGGCTGAGCGGGACGATTATAATATCAAG
upper sequence: GLYMA02G43490.1 (Glycine max), 3'ss of exon 15
lower sequence: Vv06s0004g00950.t01 (Vitis vinifera), 3'ss of exon 14
--------------------------------------gtttgctatctgactttttcttccccttcatactcttactcttatttcttgtaata--taattatttgatcgcttttatgcagACTATTGGTCAAGCATATGAAGATATGCAGACACAGAACCAAAATCTGTTGGACCAGGTGATCGAGAGGGATGACTATAATATTAAG
| | | | | | | | || | |||| || || || || | || | ||| ||| | ||| | ||||||||||||||||||||||||||||||||||||| |||||| ||||| || | ||||||| ||||||||||| || ||||| |||
gtctcctaataatatgcaaattttcttttctggccagtttccattgttttcttcctcccttcctgttcctttcttccttttgttggtttcactaattgattttttattttttttcctttagACTATTGGTCAAGCATATGAAGATATGCAGACACAAAACCAACATCTGCTGCAGCAGGTGACTGAGAGGGATGATTACAATATCAAG
upper sequence: GLYMA02G43490.1 (Glycine max), 3'ss of exon 15
lower sequence: EFJ22678 (Selaginella moellendorffii), 3'ss of exon 13
gtttgctatctgactttttcttccccttcatactcttactcttatttcttgtaatataattatttgatcgcttttatgcagACTATTGGTCAAGCATATGAAGATATGCAGACACAGAACCAAAATCTGTTGGACCAGGTGATCGAGAGGGATGACTATAATATTAAG
| | | | ||| | || |||| | || | |||| | ||||| |||||||| || |||||||||||||| |||||||| || ||||||| || ||| | ||| | ||| |||||||| || |||| |||
--------------------------gtaagatttttagttttctttcatttatgtctgtaattttct---ttttaaacagACTATCGGGCAAGCATATGAAGACATGCAGACTCAAAACCAAAGGCTTTTGCAGCAGATATCCGAAAGGGATGATTACAATACAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcatactcttactcttatttcttgtaatataattatttgatcgcttttatgcagACTATTGGTCAAGCATATGAAGATATGCAGACACAGAACCAAAATCTGTTGGACCAGGTGATCGAGAGGGATGACTATAATATTAAG
tcgctttt CT-rich tract
ttactcttatttcttg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgctatctgactttttcttccccttcatactcttactcttatttcttgtaatataattatttgatcgcttttatgcagACTATTGGTCAAGCATATGAAGATATGCAGACACAGAACCAAAATCTGTTGGACCAGGTGATCGAGAGGGATGACTATAATATTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG