Sequence
atgc intronic sequence ATGC exonic sequence...catattcattttatgtttaatgatttatgtatatagcaatagttattttcataattttttcccagtaactttgatgtttatttgacatatgcggtgacagATAATGGCAATTGGAACACTTGCATTATGCTACAACAACATTGAGGTCTTCAGAGGTGTAGTTAAAATGAGGCGAG
Basic information
species | Glycine max |
transcript | GLYMA12G04220.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G04220.3 (Glycine max), 3'ss of exon 8
lower sequence: AT4G34640.1 (Arabidopsis thaliana), 3'ss of exon 8
----------------------------------------------------------------------catattcattttatgtttaatgatttatgtatatagcaatagttattttcata----attttttcccagtaactttgatgtttatttgacatatgcggtga--cagATAATGGCAATTGGAACACTTGCATTATGCTACAACAACATTGAGGTCTTCAGAGGTGTAGTTAAAATGAGGCGAG
| | ||||| | || | ||| | | || | | | | ||| || || ||| | | | || || | ||| | |||| ||||| ||||||||||||||||||||||| ||||| | || |||||||| || || ||| |||||||||
gttagagaacgaaatatcacataattgttaagtctttaaacttcacattgagaactgtttatattgttttcctcttcatatggaattaggt-attctcctctttaactacgtctgcactaatatagaatgccttagaagttaatattgctttgcttgggtgtattttcttgattagATCATGGCGATTGGAACACTTGCATTATGCTATAACAATGAACAAGTATTCAGAGGCGTTGTGAAACTGAGGCGAG
upper sequence: GLYMA12G04220.3 (Glycine max), 3'ss of exon 8
lower sequence: Vv03s0038g00450.t01 (Vitis vinifera), 3'ss of exon 8
catattcattttatgtttaatgatttatgtatatagcaatagttattttc--ataattttttcccagtaactttgatgtttatttgacatatgcggtgacagATAATGGCAATTGGAACACTTGCATTATGCTACAACAACATTGAGGTCTTCAGAGGTGTAGTTAAAATGAGGCGAG
|| | || | | | || |||| ||| || || | || | || || | | ||| | | || | || | | |||| |||||||| || ||||| || |||||||||||||| ||||||||||||||||| ||||| ||||||||||| |
ttgatgagtgccatctatgttcatc-atgttgatatcattaatccttataggatgatcctgtggaagtttgtctcat-ctgatattgtgctacttttactagATCATGGCAATCGGGACACTAGCTTTATGCTACAACAATATTGAGGTCTTCAGAGGAGTAGTAAAAATGAGGCGTGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|13482207|gb|BG511550.1|BG511550EST: TGGCTGCTTTACGTGACCCGCCTATATTTCGCTTTTGTGCTATACCCCAG ATAATGGCAATTGGAACACTTGCATTATGCTACAACAACATTGAGGTCTTC
genomic: TGGCTGCTTTACGTGACCCGCCTATATTTCGCTTTTGTGCTATACCCCAGgtgctgttct ... gcggtgacagATAATGGCAATTGGAACACTTGCATTATGCTACAACAACATTGAGGTCTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcataattttttcccagtaactttgatgtttatttgacatatgcggtgacagATAATGGCAATTGGAACACTTGCATTATGCTACAACAACATTGAGGTCTTCAGAGGTGTAGTTAAAATGAGGCGAG
tttgatgtttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
catattcattttatgtttaatgatttatgtatatagcaatagttattttcataattttttcccagtaactttgatgtttatttgacatatgcggtgacagATAATGGCAATTGGAACACTTGCATTATGCTACAACAACATTGAGGTCTTCAGAGGTGTAGTTAAAATGAGGCGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatgtt