Sequence
atgc intronic sequence ATGC exonic sequencegttagtgttttatttccttcttcaaatttaaatgcataaatttgatatttgcttggaaatgatttatgttcacttgaacaatgtttctttttagTGCTGCTTTTAATTCCGAAACACACGAACAAGTTGCAATCAAGAAGATCGGTAACGCATTTGACAATATAATTGATGCTAAGAGAACATTGAGAGAAATC
Basic information
species | Glycine max |
transcript | GLYMA05G37480.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G37480.1 (Glycine max), 3'ss of exon 1
lower sequence: AT4G11330.1 (Arabidopsis thaliana), 3'ss of exon 1
-----gttagtgttttatttccttcttcaaatttaaatgcataaatttgatatttgcttggaaatgatttatgttcacttgaacaatgtttcttttt---agTGCTGCTTTTAATTCCGAAACACACGAACAAGTTGCAATCAAGAAGATCGGTAACGCATTTGACAATATAATTGATGCTAAGAGAACATTGAGAGAAATC
| | |||| | || | | | || | |||| | ||| | || | | |||| || | || || || | |||||||| | |||| || ||||||||| | |||| || |||||||| ||||| || ||||| |||| | | ||||| ||||||||||||||||| ||
tcaaaatcatagtttaaattgaatgaatttgatgatttgtttgtgtttg-tgtttatgtataagcaaaatg-attcatgagagtattggtttattgttatagTGCTGCAGTAGATTCGGAGACACACGAAGAGATTGCGATAAAGAAGATAGGTAAAGCCTTTGATAATAAAGTAGATGCAAAGAGAACATTGAGAGAGATT
upper sequence: GLYMA05G37480.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv02s0025g00270.t01 (Vitis vinifera), 3'ss of exon 1
-----gttagtgttttatttc--cttcttcaaatttaaatg-cata-aatttgatatttgcttggaaatgatttatgttcacttgaacaatgtttctttttagTGCTGCTTTTAATTCCGAAACACACGAACAAGTTGCAATCAAGAAGATCGGTAACGCATTTGACAATATAATTGATGCTAAGAGAACATTGAGAGAAATC
|| | | | || | ||||| || || | || || |||||| | | | | | | | |||||| |||||||| |||||||| | ||||| |||||||| || | ||||| || |||||||| ||||| ||||||||||| | ||| ||||| || || || || ||||||||
tgattcccaggaactcagaaaggtgttttaacatttacatatcagacaagttcctatttgatca-acagaagggaggataacttgatt--cctttcttttcagTGCTGCAGTAAATTCAGAAACACATGAGGAGGTTGCCATTAAGAAGATTGGTAATGCATTTGACAACAGAATAGATGCCAAAAGGACCTTAAGAGAAATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttgatatttgcttggaaatgatttatgttcacttgaacaatgtttctttttagTGCTGCTTTTAATTCCGAAACACACGAACAAGTTGCAATCAAGAAGATCGGTAACGCATTTGACAATATAATTGATGCTAAGAGAACATTGAGAGAAATC
atttgat putative branch site (score: 5)
tgtttcttttt putative PPT
aaatgatttatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtgttttatttccttcttcaaatttaaatgcataaatttgatatttgcttggaaatgatttatgttcacttgaacaatgtttctttttagTGCTGCTTTTAATTCCGAAACACACGAACAAGTTGCAATCAAGAAGATCGGTAACGCATTTGACAATATAATTGATGCTAAGAGAACATTGAGAGAAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA