Sequence
atgc intronic sequence ATGC exonic sequenceCCATTGCTGTTTCTCGAGATCACAAGCCTGACCAAACTGATGAGAGGCAAAGGATTGAAGAAGCAGGAGGCTTTGTTATGTGGGCTGgtaatgtcatcactcatcattaacatatagtcagctttagttttatttacttaattcaaaaaatatatatataatgcttatcactattgataacatcgcatatacag
Basic information
species | Glycine max |
transcript | GLYMA06G06310.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G06310.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G166035_T02 (Zea mays), 5'ss of exon 5
CCATTGCTGTTTCTCGAGATCACAAGCCTGACCAAACTGATGAGAGGCAAAGGATTGAAGAAGCAGGAGGCTTTGTTATGTGGGCTGgtaatgtcatcactca--tcattaacatatagtcagctttagttttatttacttaattcaaaaaatatatatataatgcttatcactattgataacatcgcatatacag
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CAATTGCGGTTTCAAGGGATCACAAACCTGATCAGACAGATGAGAGGCAAAGAATTGAGGATGCAGGGGGCTTTGTTATGTGGGCTGgtaatggttcctctgaatttttcaataaaaagaaaccatctatctcagt-acgtgccgttactgttatttgtac--tgtttg--attattcgaaatct-gtag------
upper sequence: GLYMA06G06310.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM5G829894_T01 (Zea mays), 5'ss of exon 4
CCATTGCTGTTTCTCGAGATCACAAGCCTGACCAAACTGATGAGAGGCAAAGGATTGAAGAAGCAGGAGGCTTTGTTATGTGGGCTGgtaatgtcatcactcatcattaacatatagtcagctttagttttatttacttaattcaaaaaatatatatataatgcttatcactattgataacatcgcatatacag
| ||||| ||||| | |||||||| ||||| || || |||||||| ||||| ||||| || ||||| |||||||||||||||||||||| || | || || | | |||| || | |||| |||||| || | | ||||| | ||||| || | ||
CGATTGCGGTTTCAAGGGATCACAAACCTGATCAGACAGATGAGAGACAAAGAATTGAGGACGCAGGGGGCTTTGTTATGTGGGCTGgtagtgattcctctgattct--atctataaaaagaaactatcttat---cttaatatgtgccattactgt----tgcttctactgcttgatttttcgaaatttgtag
upper sequence: GLYMA06G06310.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM5G829894_T02 (Zea mays), 5'ss of exon 3
-------------CCATTGCTGTTTCTCGAGATCACAAGCCTGACCAAACTGATGAGAGGCAAAGGATTGAAGAAGCAGGAGGCTTTGTTATGTGGGCTGgtaatgtcatcactcatcattaacatatagtcagctttagttttatttacttaattcaaaaaatatatatataatgcttatcactattgataacatcgcatatacag
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CTCGGAGCTGCAGCGATTGCGGTTTCAAGGGATCACAAACCTGATCAGACAGATGAGAGACAAAGAATTGAGGACGCAGGGGGCTTTGTTATGTGGGCTGgtagtgattcctctgattct--atctataaaaagaaactatcttat---cttaatatgtgccattactgt----tgcttctactgcttgatttttcgaaatttgtag
upper sequence: GLYMA06G06310.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G056572_T02 (Zea mays), 5'ss of exon 5
CCATTGCTGTTTCTCGAGATCACAAGCCTGACCAAACTGATGAGAGGCAAAGGATTGAAGAAGCAGGAGGCTTTGTTATGTGGGCTGgtaatgtcatcactcatcattaacatatagtcagctttagttttatttacttaattcaaaaaatatatatataatgcttatcactattgataacatcgcatatacag
| ||||||||||| |||||||||||||| |||||||||||| |||| | |||||||| || ||||| ||||| |||||||| |||| |||||| | || | | ||| || || || | ||| | | ||| || || | |
CTATTGCTGTTTCAAAGGATCACAAGCCTGATCAAACTGATGAGCGGCAGCGTATTGAAGATGCTGGAGGTTTTGTGATGTGGGCAGgtatgccaatcacttttttttcttaaaaagtt--tcttggtggaatatgatta-tccttctaatgcccatgctttgttctatag-----------------------
upper sequence: GLYMA06G06310.1 (Glycine max), 5'ss of exon 5
lower sequence: AT4G31750.1 (Arabidopsis thaliana), 5'ss of exon 6
CCATTGCTGTTTCTCGAGATCACAAGCCTGACCAAACTGATGAGAGGCAAAGGATTGAAGAAGCAGGAGGCTTTGTTATGTGGGCTGgtaatgtcatcactcatcattaacatatagtcagctttagttttatttacttaattcaaaaaatat-atatataatgcttatcactattgataacatcgcatatacag
| |||||||| || ||||||||||||||||| |||| ||| ||| | ||||| ||||| || |||||||| ||||| |||||||||||||| | | || | | | || | | || ||| |||| || || | || || ||| || |
CTATTGCTGTATCCCGAGATCACAAGCCTGATCAAAGTGACGAGCGCCAAAGAATTGAGGATGCAGGAGGATTTGTCATGTGGGCTGgtaa-gaaaacatttaactgaaatttctcttcttatttgtgcttatataatttgcttaattggaattatactaaaag-------------------------------
upper sequence: GLYMA06G06310.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv04s0008g07320.t01 (Vitis vinifera), 5'ss of exon 6
CCATTGCTGTTTCTCGAGATCACAAGCCTGACCAAACTGATGAGAGGCAAAGGATTGAAGAAGCAGGAGGCTTTGTTATGTGGGCTGgtaatgtcatcactcatcattaacatatagtcagctttagttttatttacttaattcaaaaaatatatatataatgcttatca-ctattgataacatcgcatatacag
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CCATTGCTGTTTCTCGAGATCACAAGCCAGACCAAACTGATGAGCGGCAGCGTATTGAGGATGCTGGAGGGTTTGTGATGTGGGCTGgtaaggacatca---atcgttaggtttttccaagtattaatcatagaacaaagtttccagtgatttggtaattgcttgcatcttctaatgattgaaattcgtttacagMapped 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|14260019|gb|BG882927.1|BG882927EST: TGATGAGAGGCAAAGGATTGAAGAAGCAGGAGGCTTTGTTATGTGGGCTG GAACTTGGAGAGTTGGAGGTGTTCTTGCTGTTTCTCGTGCGTTTGGTGATA
genomic: TGATGAGAGGCAAAGGATTGAAGAAGCAGGAGGCTTTGTTATGTGGGCTGgtaatgtcat ... gcatatacagGAACTTGGAGAGTTGGAGGTGTTCTTGCTGTTTCTCGTGCGTTTGGTGATA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCATTGCTGTTTCTCGAGATCACAAGCCTGACCAAACTGATGAGAGGCAAAGGATTGAAGAAGCAGGAGGCTTTGTTATGTGGGCTGgtaatgtcatcactcatcattaacatatagtcagctttagttttatttacttaattcaaaaaatatatatataatgcttatcactattgataacatcgcatatacag
- - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC