Sequence
atgc intronic sequence ATGC exonic sequenceTGCCCATTTCATGAAGGAAGAGGAGGAGCATATGAAACTTCAAAAACAAGAAGCATTGCAACTGCTGAAGAAGAAGGAGAAAACCGAAAATATAATCAAGgttttttcttctttatcagtttagtccttgcccttttgtttcacatccagtacttcagttcatgctaatccacccaagcaatgttgcag
Basic information
species | Glycine max |
transcript | GLYMA05G37010.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G37010.1 (Glycine max), 5'ss of exon 6
lower sequence: AT4G23800.2 (Arabidopsis thaliana), 5'ss of exon 5
TGCCCATTTCATGAAGGAAGAGGAGGAGCATATGAAACTTCAAAAACAAGAAGCATTGCAACTGCTGAAGAAGAAGGAGAAAACCGAAAATATAATCAAGgtttt---ttcttctttatca-gtttagtccttgcccttttgtttcacatccagtacttc--agttcatgctaatccacc-caagca-atgttgcag---------
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CCTGAGTCAGAAGAAAGAAGAAGAGGAACTCTTGAAACTCCACAAACAAGAAGCTCTTCAAATGCTTAAGAAGAAGGAGAAAACTGATAATCTGATCAAGgtaataactctctctcactcacacttaactcaccaaggtctatttcaactcagagactcacaggatcataattatttgtctcttgcagaaggagaaggcgaccaag
upper sequence: GLYMA05G37010.1 (Glycine max), 5'ss of exon 6
lower sequence: AT4G11080.1 (Arabidopsis thaliana), 5'ss of exon 5
TGCCCATTTCATGAAGGAAGAGGAGGAGCATATGAAACTTCAAAAACAAGAAGCATTGCAACTGCTGAAGAAGAAGGAGAAAACCGAAAATATAATCAAGgttttttcttctttatcagtttagtccttgcccttttgtttcacatccagtacttcagttcatgctaatccacccaagcaatgttgcag
| ||| ||||| || || |||||||| || ||||||||||| | ||||| || |||||||||||||||||||| ||||| || |||||| | ||| | || ||||| || | | | | | | || || | | ||||||
AATGAGCCAGAAGAAAGAAGAAGAAGAATTCATGAAACTCCATAAACAAGAAGCTCTCCAACTTCTCAAGAAGAAGGAGAAAACCGACAATATCATAAAGgttaatatactaaactcacagtgcattgagctattttg----ggatataagtcagtaactaacac-aacacatgttttctttcttgcag
upper sequence: GLYMA05G37010.1 (Glycine max), 5'ss of exon 6
lower sequence: AT4G23800.1 (Arabidopsis thaliana), 5'ss of exon 5
TGCCCATTTCATGAAGGAAGAGGAGGAGCATATGAAACTTCAAAAACAAGAAGCATTGCAACTGCTGAAGAAGAAGGAGAAAACCGAAAATATAATCAAGgttttttcttctttatcagtttagtccttgcccttttgtttcacatccagtacttcagttcatgctaatccacccaagcaa-tgttgcag
| | ||| ||||| ||||| | ||||||| || ||||||||||| | ||| |||| ||||||||||||||||| || ||| | |||||||| | || || | ||| | | | | | | || | || | ||| | | | | ||||||
CCTGAGTCAGAAGAAAGAAGAAGAGGAACTCTTGAAACTCCACAAACAAGAAGCTCTTCAAATGCTTAAGAAGAAGGAGAAAACTGATAATCTGATCAAGgtaataact-ctctctca-ctcacacttaactcaccaaggtctatttcaactcagagactcacaggatcataattatttgtctcttgcag
upper sequence: GLYMA05G37010.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv02s0025g01220.t01 (Vitis vinifera), 5'ss of exon 6
TGCCCATTTCATGAAGGAAGAGGAGGAGCATATGAAACTTCAAAAACAAGAAGCATTGCAACTGCTGAAGAAGAAGGAGAAAACCGAAAATATAATCAAGgttttttcttctttatcagtttagtccttgcccttttgtttcacatccagtacttcagttcatgctaatccacccaagcaatgttgcag
|| || ||| ||||| |||||||||||| |||||| | || ||||| |||||||| |||||||| |||||||| || |||||||||||||||||||||||| || | | || ||| || | | ||||| | || |||| ||||||| ||| | |
TGAAGATCTCAAGAAGGGAGAGGAGGAGCAGATGAAAATCCAGAAACATGAAGCATTACAACTGCTCAAGAAGAAAGAAAAAACCGAAAATATAATCAAGgttctt-caacgttgtcaccataaatttgtgggtattgtt--ggtttcaaaacttattcagcagctaatctgtggtttgaatatag---Mapped 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|208053351|gb|GD855686.1|GD855686EST: AAGCATTGCAACTGCTGAAGAAGAAGGAGAAAACCGAAAATATAATCAAG AAAACAAAACA
genomic: AAGCATTGCAACTGCTGAAGAAGAAGGAGAAAACCGAAAATATAATCAAGgttttttctt ... aatgttgcagAAAACAAAACA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCCCATTTCATGAAGGAAGAGGAGGAGCATATGAAACTTCAAAAACAAGAAGCATTGCAACTGCTGAAGAAGAAGGAGAAAACCGAAAATATAATCAAGgttttttcttctttatcagtttagtccttgcccttttgtttcacatccagtacttcagttcatgctaatccacccaagcaatgttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA