Sequence
atgc intronic sequence ATGC exonic sequenceTCATACTGTCCTCCCTGAAGCACTGGAGAAATGGTCTCAACCTGTAATGTGGAAACTACTTCCACGCCATATGGAAATCATACAAGAAATAGACAAGAGAgtaagttgctcaccttccatgtttctttctattaactccatgaaaggtgtactgatatatttgaatatggaaatcatgaaattcttgcag
Basic information
species | Glycine max |
transcript | GLYMA08G45210.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G45210.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os01g63270.1 (Oryza sativa), 5'ss of exon 8
TCATACTGTCCTCCCTGAAGCACTGGAGAAATGGTCTCAACCTGTAATGTGGAAACTACTTCCACGCCATATGGAAATCATACAAGAAATAGACAAGAGAgtaagttgctcaccttccatgtttctttctattaactccatgaaaggtgtactgatatatttgaatatggaaatca-tgaaatt--cttgcag
||| ||||| || |||||||| || ||||||||||| || ||||||| ||||| |||||||||| || |||||||| || | ||||| |||||| | |||||| || | ||||| | | || | || ||| | ||| | |||||| | | || |||| |||||||
TCACACTGTTCTTCCTGAAGCCCTTGAGAAATGGTCGCAGATTGTAATGAGGAAATTACTTCCACGACACATGGAAATTATCGAGGAAATTGACAAGCGGgtaagtg--ccatgtcacatgtatgcatactttttatacac--------tacagttatggtaaaatatgacacctagtgcaattggcttgcag
upper sequence: GLYMA08G45210.1 (Glycine max), 5'ss of exon 9
lower sequence: AT3G46970.1 (Arabidopsis thaliana), 5'ss of exon 9
TCATACTGTCCTCCCTGAAGCACTGGAGAAATGGTCTCAACCTGTAATGTGGAAACTACTTCCACGCCATATGGAAATCATACAAGAAATAGACAAGAGAgtaagttgctcacc-ttccatg--tttctttctattaactccatgaaaggtgtactgatatatttgaatatggaaatcatgaaattcttgcag
||| |||||||| |||||||| ||||||||||||| ||| || | |||||||| || ||||| || ||||||||||| ||| |||| || |||||||| ||| ||||| | | ||| | | ||| ||| ||| | | || | | |||||| | | || |
TCACACTGTCCTTCCTGAAGCGTTGGAGAAATGGTCACAATCTTTGATGTGGAAGCTTCTTCCTCGTCATATGGAAATAATAGAAGAGATTGACAAGAGGgtattttgctgatcattctaaggatttgtttttatcatatggtgcaataataaa---atatataccattctgcag------------------
upper sequence: GLYMA08G45210.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv06s0004g06020.t01 (Vitis vinifera), 5'ss of exon 8
TCATACTGTCCTCCCTGAAGCACTGGAGAAATGGTCTCAACCTGTAATGTGGAAACTACTTCCACGCCATATGGAAATCATACAAGAAATAGACAAGAGAgtaagttgctcaccttccatgtttctttctattaactccatgaaaggtgtactgatatatttgaatatggaaatcatgaaattcttgcag
||| |||||||| ||||||||||| ||||||||||| ||| |||||||||||| || |||||||||||||||||||||||| ||||||| || ||| | |||| || ||| | | || ||||| || || | | | | | | ||||||| || ||| || | || ||||||
TCACACTGTCCTTCCTGAAGCACTTGAGAAATGGTCACAAGTTGTAATGTGGAAGCTTCTTCCACGCCATATGGAAATCATAGAAGAAATTGATAAGCGGgtaaactggctacc--catttcttatttctcctatgtctgcatatgttattttaaattatttgattactgaa-ccacagactttttgcagMapped 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|23731258|gb|BU763741.1|BU763741EST: GGAAACTACTTCCACGCCATATGGATTTCATACAAGAAATAGACAAGAGA TTCACTGCAATGATAAATACAACCCGATTGGACCTTGAGAATGAGCTTTCC
genomic: GGAAACTACTTCCACGCCATATGGAAATCATACAAGAAATAGACAAGAGAgtaagttgct ... attcttgcagTTCACTGCAATGATAAATACAACCCGATTGGACCTTGAGAATGAGCTTTCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCATACTGTCCTCCCTGAAGCACTGGAGAAATGGTCTCAACCTGTAATGTGGAAACTACTTCCACGCCATATGGAAATCATACAAGAAATAGACAAGAGAgtaagttgctcaccttccatgtttctttctattaactccatgaaaggtgtactgatatatttgaatatggaaatcatgaaattcttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA