Sequence
atgc intronic sequence ATGC exonic sequenceGGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCTCATACAATCAAAGCTGTGTTGGAGTCTGGGTTGTGGACATCTCGgtaaatgcacttatcttcaagagaatttttttctgcttatatgaatgttgtatttgataccatttaatactaatgtgtcttttttacatttctgacctcttgtccag
Basic information
species | Glycine max |
transcript | GLYMA05G09360.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G09360.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os04g58130.1 (Oryza sativa), 5'ss of exon 8
GGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCTCATACAATCAAAGCTGTGTTGGAGTCTGGGTTGTGGACATCTCGgtaaatgcacttatcttcaagagaatttttttctgcttatatgaatgttgtatttga---taccatttaatactaat-gtgtcttttttacatttctgacctcttgtccag
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GGGATGGTCTAGACTGTCTGATCTAAATGTCCACGAGGGAAAACTTCTTGGTTGTTCATTTAATCAAAGTTGTGTTGGAATATGGGTTGTAGATCTAACGgtatgttt-ctggcttccctgctacagttctaacaccaatatattattttcattgaagttccccatttgtttttagttataatgtactaaaaaccatcaattttcag----
upper sequence: GLYMA05G09360.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G160702_T01 (Zea mays), 5'ss of exon 8
GGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCTCATACAATCAAAGCTGTGTTGGAGTCTGGGTTGTGGACATCTCGgtaaatgcactt-------atcttcaagagaatttttttctgcttatatgaatgttgtatttgataccatttaatactaatgtgtcttttttacatttctgacctcttgtccag
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GGGATGGTCTAGACTTGCCGATTTGAATGTCCATGAGGGAAAACTTCTTGGTTGTTCTTTCAATCAAAGTTGTGTTGGAATATGGGTTGTTGATCTGACGgtatgttggcttcggctacatctgtaacactgatcagttacgttcaattgaatttttttttcttga--atatactaataaagtaatcaattgacag------------------
upper sequence: GLYMA05G09360.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G406553_T04 (Zea mays), 5'ss of exon 8
GGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCTCATACAATCAAAGCTGTGTTGGAGTCTGGGTTGTGGACATCTCGgtaaatgcactt-atcttcaagag-aatttttttctgcttatatgaatgttgtatttgataccatttaatactaatgtgtcttttttacatttctgacctcttgtccag
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GGGATGGTCTAGACTTGCTGATTTGAATGTCCACGAGGGAAAACTTCTTGGTTGTTCTTTCAATCAAAGTTGTGTTGGAATATGGGTTGTTGATCTGACGgtatgttgacttcagctacatttgtaacactgatctgttttccttcttgccttttaatctaataagtaataacaaagtaatcaattggcag------------------
upper sequence: GLYMA05G09360.1 (Glycine max), 5'ss of exon 9
lower sequence: AT5G08390.1 (Arabidopsis thaliana), 5'ss of exon 9
GGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCTCATACAATCAAAGCTGTGTTGGAGTCTGGGTTGTGGACATCTCGgtaaatgcacttatcttcaagagaatttttttctgcttatatgaatgttgtatttgataccatttaatactaatgtgtcttttttacatttctgacctcttgtccag
|| ||||| | ||||| ||| | |||||||| || ||||| ||||| ||||||||||||||||||| ||||| || || |||||||| ||| |||||||| || | ||| | | || ||||| | || | | |||| ||| |||| | || || | ||||| | | |||
TGGATGGTCAAACTTGTCGGATATGAATGTTCACGAGGGAAAGCTTCTCGGTTGCTCATACAATCAAAATTGTGTAGGCGTTTGGGTTGTAGACCTCTCGgtatatctctctctctctccccctacatgcttt--gttata-gtttggcctgtaccatacttgttatctctaagctctccattcaat-tttctaatgacactctcag
upper sequence: GLYMA05G09360.1 (Glycine max), 5'ss of exon 9
lower sequence: AT5G23430.2 (Arabidopsis thaliana), 5'ss of exon 9
GGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCTCATACAATCAAAGCTGTGTTGGAGTCTGGGTTGTGGACATCTCGgtaaatgcacttatcttcaagagaatttttttctgcttatatgaatgttgtatttgataccatttaatactaatgtg-tcttttttacatttctgacctcttgtccag
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TGGATGGTCAAGATTGTCAGATATGAATGTTCACGAGGGAAAGCTTCTTGGTTGCTCATACAATCAGAGTTGTGTAGGCGTGTGGGTTGTAGATCTCTCGgta----ttcctctctccctacatatctttttctttttgtttaa---ttgtagctggtagtaatctttacgaaccaactcattttcaaatgcatggtcag--------
upper sequence: GLYMA05G09360.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv10s0071g01150.t01 (Vitis vinifera), 5'ss of exon 8
GGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCTCATACAATCAAAGCTGTGTTGGAGTCTGGGTTGTGGACATCTCGgta--------------aatgcacttatctt-caagagaattt---ttttctgcttatatgaatgttg-tatttgataccatttaata-ctaatgtgtcttttttacatttctgacctcttgtccag
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GGGGTGGTCTAGATTATCAGATCTTAACATTCATGAGGGAAAGCTCCTGGGCTGCTCATACAACCAAAGTTGTGTTGGAGTCTGGGTTGTGGATCTCTCGgtattacttagtttctcaccatctctatattacatgtgactttgattgtttcccttgcactgatggtggtagatagtctgagtttctaactggtgtatggtttgtg-acacttaacctcttgaacagMapped 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|193569793|gb|FK523590.1|FK523590EST: GTTGCTCATACAATCAAAGCTGTGTTGGGGTCTGGGTTGTGGACATCTCG CGTATAGAACCATATGCACTTAATAATGTGAACCATCTAAATGGCCATTCA
genomic: GTTGCTCATACAATCAAAGCTGTGTTGGAGTCTGGGTTGTGGACATCTCGgtaaatgcac ... tcttgtccagCGTATAGAACCATATGCACTTAATAATGTGAACCATCTAAATGGCCATTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGTTGGTCTAGATTGTCAGATCTTAATGTTCATGAAGGAAAACTTCTTGGTTGCTCATACAATCAAAGCTGTGTTGGAGTCTGGGTTGTGGACATCTCGgtaaatgcacttatcttcaagagaatttttttctgcttatatgaatgttgtatttgataccatttaatactaatgtgtcttttttacatttctgacctcttgtccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG