Sequence
atgc intronic sequence ATGC exonic sequence...aagattccttgagttataaacaaacagtatttttttaaccacctgatactaagatattccacttaacaactttttttttaatcttgtctgatcaatgcagCGGCTATATGTGACCATGTTTCCGTGCAATGAATGTGCTAAGATCATAATCCAG
Basic information
species | Glycine max |
transcript | GLYMA05G03380.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G03380.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g55974.1 (Oryza sativa), 3'ss of exon 6
aagattccttgagttataaacaaacagtatttttttaaccacctgatactaagatattccacttaacaactttttttttaatcttgtctgatcaatgcagCGGCTATATGTGACCATGTTTCCGTGCAATGAATGTGCTAAGATCATAATCCAG
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-----gtttggacttctaatctcctacaaactta--aagcatctcat--taatttgcctttataagctaagaataatcttgtgttatcttctctttgcagAAATTATATGTTACCATGTTCCCCTGCAATGAGTGTGCTAAGATTATTATCCAG
upper sequence: GLYMA05G03380.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv17s0000g01370.t01 (Vitis vinifera), 3'ss of exon 6
------aagattccttgagttataaacaaacagtatttttttaaccacctgatactaagatattccacttaacaactttttttttaatcttgtctgatcaatgcagCGGCTATATGTGACCATGTTTCCGTGCAATGAATGTGCTAAGATCATAATCCAG
|| || ||| || | | | ||| | |||| | | | ||| || | | ||| | | || || ||||| ||||| |||| ||||||||||||||||| ||||| |||||||| ||||| || || |||
atcaacaatgtttgctgattttt--ctgagtttttatttgaagagaaccttgggtgattac-tggtactaaaagaatgtttctcttat---gtttgatctttgcagAGGCTTTATGTGACCATGTTTCCTTGCAACGAATGTGCCAAGATAATCATTCAG
upper sequence: GLYMA05G03380.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ28892 (Selaginella moellendorffii), 3'ss of exon 4
aagattccttgagttataaacaaacagtatttttttaaccacctgatactaagatattccac-ttaacaactttttttttaatcttgtctgatcaatgcagCGGCTATATGTGACCATGTTTCCGTGCAATGAATGTGCTAAGATCATAATCCAG
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--------------------------------------gtactcgtca--aattcatgccacgttgaaagctctcccttcacttggatc---tccgtttagAGGCTCTATGTGACCATGTTCCCGTGCAACGAGTGTGCCAAAGTCATAATCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atactaagatattccacttaacaactttttttttaatcttgtctgatcaatgcagCGGCTATATGTGACCATGTTTCCGTGCAATGAATGTGCTAAGATCATAATCCAG
ttaacaactttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagattccttgagttataaacaaacagtatttttttaaccacctgatactaagatattccacttaacaactttttttttaatcttgtctgatcaatgcagCGGCTATATGTGACCATGTTTCCGTGCAATGAATGTGCTAAGATCATAATCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - ttccttg
- - - - - - - - -aaacaaa
- - - - - - - - - - - - - - - - - - -accacct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccactta