Sequence
atgc intronic sequence ATGC exonic sequence...atatatatatatatatatccgtctatcgtatgattgtgtgtgctttcattattgctctgttggatttcaaacaataagacatgagatcatctgtctgcagTTGTGCGGCTTATGGGGCGGGCGGCTTCACACATTACGCTGGAATGTGCTTTACAAACTCATCCAAACATTACTATTATTGGAGAAGAG
Basic information
species | Glycine max |
transcript | GLYMA09G01050.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G01050.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G059151_T01 (Zea mays), 3'ss of exon 7
-atatatatatatatatatccgtctatcgtatgattgtgtgtgctttcattattgctctgttggatttcaaacaataagacatgagatcatctgt--ctgcagTTGTGCGGCTTATGGGGCGGGCGGCTTCACACATTACGCTGGAATGTGCTTTACAAACTCATCCAAACATTACTATTATTGGAGAAGAG
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gcagtgctaacgtgta-gtccatgaatattggaa--gtatataacagaattacagatcggacattttgtcaataaaaattctaacaagcacttgctcttgcagTTGTGAGGCTTATGGGTCGTGCTGCTTCTCACATTACGCTGGAATGCGCTTTGCAAACACACCCCAATGCTGCACTCATTGGGGAAGAG
upper sequence: GLYMA09G01050.1 (Glycine max), 3'ss of exon 7
lower sequence: AT4G04040.1 (Arabidopsis thaliana), 3'ss of exon 7
atatatatatatatatatccgtcta-tcgtatgattgtgtgtgctttcattattgctctgttggatttcaaacaataagacatgagatcatctgtctgcagTTGTGCGGCTTATGGGGCGGGCGGCTTCACACATTACGCTGGAATGTGCTTTACAAACTCATCCAAACATTACTATTATTGGAGAAGAG
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------------gtaagtttgttttctcttagcaaaatgaattttcttgatacaaatttact--atatcatttcatctgtt----gattatct--ctatagTTGTGCGTCTTATGGGTCGTGCTGCTTCTCACATTACACTTGAATGCGCTTTGCAAACCCATCCAAACATTACCATTATTGGAGAAGAG
upper sequence: GLYMA09G01050.1 (Glycine max), 3'ss of exon 7
lower sequence: AT1G12000.1 (Arabidopsis thaliana), 3'ss of exon 7
atatatatatatatatatccgtctatcgtatgattgtgtgtgctttcattattgctctgttggatttcaaacaataagacatgagatcatctgtctgcagTTGTGCGGCTTATGGGGCGGGCGGCTTCACACATTACGCTGGAATGTGCTTTACAAACTCATCCAAACATTACTATTATTGGAGAAGAG
|| || || | || | | || | ||| | || ||| | || || || | || || | || |||| | | ||||||||| | |||||||| || || ||||| ||||||||||| || ||||||||||||||||| |||||||| || |||||||||||||||
--gtaagtaaatgtttaacaaaatttcttgaagttgcat-catttctattgt-gccctatttgtttacatgctgtatcacat-------tttcattgcagTTGTAAGACTTATGGGTCGTGCTGCTTCCCACATTACGCTTGAGTGTGCTTTACAAACTCACCCAAACATAACCATTATTGGAGAAGAG
upper sequence: GLYMA09G01050.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv10s0116g00360.t01 (Vitis vinifera), 3'ss of exon 7
-atatatatatatatata-tccgtctatcgtatgattgtgtgtgctttcattattgctctgttggatttcaaacaataagacatgagatcatctgtctgcagTTGTGCGGCTTATGGGGCGGGCGGCTTCACACATTACGCTGGAATGTGCTTTACAAACTCATCCAAACATTACTATTATTGGAGAAGAG
|| | | | ||| ||| | | | | || | ||| | | || | | | |||| || || | | | | || | ||||||| || ||||||||||| || || ||||||||||| |||| |||||||| |||||||||||||||||||| |||||||| ||||||
gatttcaactcttttatgctccaatttacatttccttatttgttttatttcctttcttttatatgattgtaagtggtatt-tgtatgtttgtgtgcat-cagTTGTACGACTTATGGGGCGTGCAGCCTCACACATTACATTGGAGTGTGCTTTGCAAACTCATCCAAACATTACAATTATTGGTGAAGAGMapped 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|16278479|gb|BI942925.1|BI942925EST: GGAAAATATTACCATT TTGTGCGGCTTATGGGGCGGGCGGCTTCACACATTACGCTGGAATGTGCTT
genomic: GGAAAATATTACCATTgtaagtacat ... ctgtctgcagTTGTGCGGCTTATGGGGCGGGCGGCTTCACACATTACGCTGGAATGTGCTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcattattgctctgttggatttcaaacaataagacatgagatcatctgtctgcagTTGTGCGGCTTATGGGGCGGGCGGCTTCACACATTACGCTGGAATGTGCTTTACAAACTCATCCAAACATTACTATTATTGGAGAAGAG
tctgtct CT-rich tract
atttcaaacaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatatatatatatatatccgtctatcgtatgattgtgtgtgctttcattattgctctgttggatttcaaacaataagacatgagatcatctgtctgcagTTGTGCGGCTTATGGGGCGGGCGGCTTCACACATTACGCTGGAATGTGCTTTACAAACTCATCCAAACATTACTATTATTGGAGAAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - -gtgtgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tctgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - acatgag