Sequence
atgc intronic sequence ATGC exonic sequenceGGAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAACACCAAGCTACTATAGTTTGGCTGCATGGTCTTGGTGACAATGGTTTGAGgtatggatggcattctctttaatattgttatatgcctaattcacctatgaggcatatattgtacttttttctgttgtggatcctttcatagcttgtgtct...
Basic information
species | Glycine max |
transcript | GLYMA08G22420.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G22420.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os05g51050.1 (Oryza sativa), 5'ss of exon 2
GGAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAACACCAAGCTACTATAGTTTGGCTGCATGGTCTTGGTGACAATGGTTTGAGgtatggatggcattctctttaatattgttatatgcctaattcacctatgaggcatatattgtacttttttctgttgtggatcctttcatagcttgtgtct---
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GTCAGAGAGTTGAGTACGGGAGGACCTATGTGGTGAGGCCAAAGGGAAGGCACCAAGCCACCATTGTGTGGCTTCATGGCCTAGGTGACAATGGTGCAAGgtactagctgtatgctgctggtt--tgatatagatttgcctgttccacaaa-cttttcttgcttactcagatgctcccctttcaagcaatactatcttcttca
upper sequence: GLYMA08G22420.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os04g09540.1 (Oryza sativa), 5'ss of exon 2
GGAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAACACCAAGCTACTATAGTTTGGCTGCATGGTCTTGGTGACAATGGTTTGAGgtatggatggcattctctttaatattgttatatgcctaattcacctatgaggcatatattgtacttttttctgttgtggatcctttcatag---cttgtgtct---
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GTCGGAGAGTCGAGTATGGGAGGACCTATATAGTGAGGCCAAAGGGAAGGCACCAAGCCACCATTGTGTGGCTCCATGGTCTAGGTGACAATGGTGCAAGgtatta----tatagtggctagc-ttgatatacagccactgcctcttcgttccaaactttgc-ttgtttactcatgctccttcaagcatggtaccttctacctttt
upper sequence: GLYMA08G22420.1 (Glycine max), 5'ss of exon 2
lower sequence: AT3G15650.2 (Arabidopsis thaliana), 5'ss of exon 2
GGAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAACACCAAGCTACTATAGTTTGGCTGCATGGTCTTGGTGACAATGGTTTGAGgtatgg--atggcattctctttaa--tattgttatatgcctaattcacctatgaggcatatattgtacttttt---tctgttgtggatcctttcatagcttgtgtct
|| ||| |||||||| | ||| |||| |||||||| |||||||| |||||||||||||| |||||| |||| |||||||| |||||||| | |||||| || || || | || |||| | ||| | || | | | | || | |||| | || | | ||| | |
CAAGGGGCTATGAGTTTGGAAGGACTTATGTTGTGAGGCCTAAAGGAAAGCACCAAGCTACTATTGTTTGGTTGCACGGTCTTGGAGACAATGGCTCCAGgtattataatactatctcacttgccttgtttttatgaacaaaatcaagtaataaagaaagttttatgctttgaaagcttaaagtcatacttgtcaaaaca-------
upper sequence: GLYMA08G22420.1 (Glycine max), 5'ss of exon 2
lower sequence: AT1G52700.1 (Arabidopsis thaliana), 5'ss of exon 2
GGAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAACACCAAGCTACTATAGTTTGGCTGCATGGTCTTGGTGACAATGGTTTGAGgt---atggatggcattctctttaatattgttatatgcctaattcacctatgaggcatat-attgtacttttttctgttgtggatcctttcatagcttgtgtct
|| | | || ||||| | ||| |||| |||||||| |||||||| || ||||| ||| |||| ||||| |||||||||||||||||||| | |||| | | ||| || ||| |||| | || | | | || | || | || | | | | | | | |
CAAGGGGATATGAATTTGGAAGGACTTATGTTGTGAGGCCTAAAGGAAAGCATCAAGCCACTCTAGTCTGGCTTCATGGTCTTGGTGACAATGGCTCTAGgttacactcttcacatggctctttcgattattatgctttttttttgtgtcttaaaagaatcaaactaacatcttgaagcataaactcctccgtggtgctt----
upper sequence: GLYMA08G22420.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv09s0002g06010.t01 (Vitis vinifera), 5'ss of exon 3
GGAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAACACCAAGCTACTATAGTTTGGCTGCATGGTCTTGGTGACAATGGTTTGAGgtatggatggcattctctttaatattg-ttatatgcct----aattcacctatgaggcatatattgtacttttttctgttgtggatcctttcatagcttgtgtct
| || | ||| |||||||| | |||||||||||||||||| || ||||||||||| || || ||||||||||| ||||| |||||||||||||| | |||||| | || || | ||| |||| || || | | | | |||||| | ||| | | | || | | | | || | || | | |
GAAGGACCTTTGAGTTTGGAAGGACACATGTGGTGAGGCCCAAGGGAAAACACCAGGCCACAATAGTTTGGCTACATGGCCTTGGTGACAATGGCTCAAGgtattgttgctgtttt--ttaccattgcttgcattcttttgaacattttctatgatttctttatagcattcttgtaattagaagttcaatgggtaccatttt---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|14011490|gb|BG726412.1|BG726412EST: CACCAAGCTACTATAGTTTGGCTGCATGGTCTTGGTGACAATGGTTTGAG CTCTTATCAGCTGCTGGAATCTCTTACACTTACAAAT
genomic: CACCAAGCTACTATAGTTTGGCTGCATGGTCTTGGTGACAATGGTTTGAGgtatggatgg ... tttgttgcagCTCTTATCAGCTGCTGGAATCTCTTCCACTTCCAAAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGAGAAGCTTGGAGTTTGGGAAGACACATGTGGTGAGGCCAAAAGGAAAACACCAAGCTACTATAGTTTGGCTGCATGGTCTTGGTGACAATGGTTTGAGgtatggatggcattctctttaatattgttatatgcctaattcacctatgaggcatatattgtacttttttctgttgtggatcctttcatagcttgtgtct
- - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT