Sequence
atgc intronic sequence ATGC exonic sequencegtaagaccatcttttctgggttgaattattgtggcaaaggttacaattgatgcttaatttgaactgtttttcctaatggttttgacttgctgcagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
Basic information
species | Glycine max |
transcript | GLYMA13G28720.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 6
gtaagaccatcttttctgggttgaattattgtggcaaaggttacaattgatgcttaat-ttgaactgtttttcctaatggttttgacttgctgcagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
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-----gttagtttacttagcctccgctctc-caaccattcttatgaacaacttctgatgttgtactgaacattttgc--attctgtttggt--cagAACCATATAAGGGAGAACCTATTGCAGCCAGGAAAATTTGATGTGTGTGTCACTAGTTTTGAAATGGCAATCAAAGAAAAAACTACACTGAAGCGTTTCA
upper sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 6
gtaagaccatcttttctgggttgaattattgtggcaaaggttacaattgatgcttaatttgaactgt-ttttcctaatggttttgacttgctg---cagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
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---------------------gtaatccccatgttatct-ctgtcattcatgtgaacttcttgtggtatattgctaacatatttgtcatacttggtcagAACCATATCCGGGAAAATTTGTTAGTCCCAGGGAAGTTTGACGTCTGTGTTACTAGTTTTGAAATGGCAATTAAAGAAAAAACTGCATTGAAGCGTTTCA
upper sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 3
gtaagaccatcttttctgggttgaattattgtggcaaaggttacaattgatgcttaatttgaactgtttttcctaatggttttgacttgctgcagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
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-------gttagtctcaactctaaagtctaatctctaatgactta--tggagcctatattgccatgtta---ctgacc-ttctcttctgtgtcagAACCATATAAGGGACAATTTGCTGCAACCTGGGAAATTTGATGTGTGTGTGACTAGTTTTGAAATGGCAATCAAAGAAAAATCTGCGTTGAGGCGCTTCA
upper sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaagaccatcttttctgggttgaattattgtggcaaaggttacaattgatgcttaatttgaactgtttttcctaatggttttgacttgctgcagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
| | || | || | | || | || | | | ||| | || |||| | | || ||||||||||||| |||| || || | ||||| ||||| |||||| ||||||||||||| ||||| ||||| ||||| |||||| | || | ||||| ||||
--------gtaagtcatgagctgt-ctgccatttcagaatttcatgtaaacgtttatccca----ggattctgaaatgtctgctaactgatgcagAGACATATTCGAGAAGACCTGCTAGTTGCTGGGAAATTTGATATTTGTGTCACAAGCTTTGAGATGGCCATCAAAGAGAAGACAGCACTTCGTCGGTTTA
upper sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ06565 (Selaginella moellendorffii), 3'ss of exon 6
gtaagaccatcttttctgggttgaattattgtggcaaaggttacaattgatgcttaatttgaactgtttttcctaatggttttgacttgc--tgcagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
| || | | | | ||| ||| |||| ||| | | | | | ||||| ||||| ||| || ||| | | | ||||| || ||||| ||||||||||| ||||| |||||||||||||| || || | | | || || ||| |
---------------------------------gtaataataaaactcgat--ttattttgttttgtgcgctcaacagctgtctacttgtattgcagGCACAACAAAGGGATTATCAGCTTGTTGCTGGCAAGTTCGATGTTTGTGTAACAAGCTTTGAAATGGCAATAAAAGAAAGGGCGGCCTTAAAGAAATTCA
upper sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ31365 (Selaginella moellendorffii), 3'ss of exon 6
gtaagaccatcttttctgggttgaattattgtggcaaaggttacaattgatgcttaatttgaactgtttttcctaatggttttgacttgc--tgcagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
| || | | | | ||| ||| |||| ||| | | | | | ||||| ||||| ||| || ||| | | | ||||| || ||||| ||||||||||| ||||| |||||||||||||| || || | | | || ||| ||| |
---------------------------------gtaataataaaactcgat--ttattttgttttgtgcgctcaacagttgtctacttgtattgcagGCACAACAAAGGGATTATCAGCTTGTTGCTGGCAAGTTCGATGTTTGTGTAACAAGCTTTGAAATGGCAATAAAAGAAAGGGCGGCCTTGAAGAAATTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacaattgatgcttaatttgaactgtttttcctaatggttttgacttgctgcagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
ttaatttgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagaccatcttttctgggttgaattattgtggcaaaggttacaattgatgcttaatttgaactgtttttcctaatggttttgacttgctgcagAGACATATCAGAGATGAATTGTTGGTTGCCGGGAAGTTTGATGTTTGTGTCACAAGTTTTGAAATGGCAATCAAGGAGAAGTCTGCTTTGCGTCGATTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT