Sequence
atgc intronic sequence ATGC exonic sequencegtcatttttttatttatttatttgttcagccaatatttaagataacattcaataacactagtctaattggctttctatgctatactatgcagGATCTATTTTGTACATAAAGAGGGAGTTTAATCTTCAAAGTGAACCCACAATAGAAGGTCTAATTGTGGCCATGTCACTTATTGGAGCCACTGTCGTTAC
Basic information
species | Glycine max |
transcript | GLYMA02G48150.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA02G48150.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G35300.3 (Arabidopsis thaliana), 3'ss of exon 1
-----------------------------------------------------gtcatttttttatttatttatttgttcagccaatatttaagataacattcaataacacta-gtctaatt---ggctttctatgctatactatgcagGATCTATTTTGTACATAAAGAGGGAGTTTAATCTTCAAAGTGAACCCACAATAGAAGGTCTAATTGTGGCCATGTCACTTATTGGAGCCACTGTCGTTAC
| | ||||| || | | || ||| || | | | | | | ||| | ||||| || |||| ||||||| || | ||||||||||| | |||||||||| | | ||| | || || | ||||||||||||||||| |||||||||||||| || ||| | ||||
gtgattgattatcttctgtatccataattctgtttatgaaatttaggatcgataaagtcaggatttttatggatacaattcacagatcttttagcttatctcttttgcttgtgtgatggattttaagttttctttgg-gtactctgcagGAGCTGTGTTGTACATAAAAAAGGAGTTTAATTTGGAGAGTAATCCATCAGTGGAAGGTCTAATTGTGGCGATGTCACTTATTGGTGCTACTCTGATTAC
upper sequence: GLYMA02G48150.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv03s0038g03940.t01 (Vitis vinifera), 3'ss of exon 1
--------gtcatttttttatttatttatttgttcagccaatatttaagataacattcaataacactagtctaattggctttctatgctatactatgcagGATCTATTTTGTACATAAAGAGGGAGTTTAATCTTCAAAGTGAACCCACAATAGAAGGTCTAATTGTGGCCATGTCACTTATTGGAGCCACTGTCGTTAC
| || || || | | | | || | || | | | | | | |||| || || || | || | | |||||| || || | ||||| |||| ||| || || | ||| |||||||||| |||| |||||||||||||||||||| || || |||||||| || | ||
gcaaaattggagttcttatagtggtattcatctttaaatcttaagcattttggctgttagtctcacttgtggaaaatttttcttctgttttctgctgcagGGGCTGTTCTATACATCAAGAAGGAATTCAACTTGCAAGGTGAACCCACTGTAGAGGGTCTAATTGTGGCCATGTCTCTCATCGGAGCCACGTTCATCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taagataacattcaataacactagtctaattggctttctatgctatactatgcagGATCTATTTTGTACATAAAGAGGGAGTTTAATCTTCAAAGTGAACCCACAATAGAAGGTCTAATTGTGGCCATGTCACTTATTGGAGCCACTGTCGTTAC
attcaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcatttttttatttatttatttgttcagccaatatttaagataacattcaataacactagtctaattggctttctatgctatactatgcagGATCTATTTTGTACATAAAGAGGGAGTTTAATCTTCAAAGTGAACCCACAATAGAAGGTCTAATTGTGGCCATGTCACTTATTGGAGCCACTGTCGTTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG