Sequence
atgc intronic sequence ATGC exonic sequencegtactatattcatggtctagcaggcattcactggtaaacatgtcaatgcttgaaaggttttgatcacagtaatttgtgtatcttttcagATTGGCTTATCTTCATGAAGGTCTTGAACCAAAAGTTGTCCACCGAGATGTGAAATCAAGCAACATACTGATTGATCGCCAATGGAACCCAAAGGTTTCT
Basic information
species | Glycine max |
transcript | GLYMA16G03650.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G03650.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G01540.1 (Arabidopsis thaliana), 3'ss of exon 3
gtactatattcatggtctagcaggcattcactggtaaacatgtcaatgcttgaaaggttttgatcacagtaa---tttgtgtatcttttcagATTGGCTTATCTTCATGAAGGTCTTGAACCAAAAGTTGTCCACCGAGATGTGAAATCAAGCAACATACTGATTGATCGCCAATGGAACCCAAAGGTTTCT
|| ||| | || || | | || || ||| || ||| | ||| | |||| ||||| ||| | | |||||||| ||||| || || |||||||| ||||||||||| || || ||| | ||||||||||| || | |||||||||||||||| | ||||||||
-----gtaagtctgg---aatagcttttgagttgt-----cctctatgtttataagctattgttgtgtgtaaacctttgt-tatatctgtagATTGGCGTATCTACACGAGGGTCTTGAGCCAAAAGTTGTTCATCGGGATATTAAATCAAGCAATATCTTACTTGATCGCCAATGGAATGCTAAGGTTTCG
upper sequence: GLYMA16G03650.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv15s0046g02030.t01 (Vitis vinifera), 3'ss of exon 3
------gtactatattcatggtctagcaggcattcactggtaaac--atgtcaatgcttgaaaggtt---ttgat-cacagtaatttgtgtatcttttcagATTGGCTTATCTTCATGAAGGTCTTGAACCAAAAGTTGTCCACCGAGATGTGAAATCAAGCAACATACTGATTGATCGCCAATGGAACCCAAAGGTTTCT
||| | || || | || || | | | || |||||| ||||| | || | | | | | | | | |||||||| ||||||||||| |||||||||||||| |||||||| |||||||| ||||| ||||||||||| ||||||||||||||||| | ||||| |||
gtacctaccctagtctgatatactgaaaactatccaacttttgcccgaaaacattgcttggcaggttgttctaatgtgctttgctatttttgttgctgtagATTGGCCTATCTTCATGAGGGTCTTGAACCAAAGGTTGTCCATCGAGATGTAAAATCTAGCAACATACTACTTGATCGCCAATGGAACTCTAAGGTGTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaacatgtcaatgcttgaaaggttttgatcacagtaatttgtgtatcttttcagATTGGCTTATCTTCATGAAGGTCTTGAACCAAAAGTTGTCCACCGAGATGTGAAATCAAGCAACATACTGATTGATCGCCAATGGAACCCAAAGGTTTCT
ttttgat putative branch site (score: 4)
tatcttttc putative PPT
agtaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactatattcatggtctagcaggcattcactggtaaacatgtcaatgcttgaaaggttttgatcacagtaatttgtgtatcttttcagATTGGCTTATCTTCATGAAGGTCTTGAACCAAAAGTTGTCCACCGAGATGTGAAATCAAGCAACATACTGATTGATCGCCAATGGAACCCAAAGGTTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA