Sequence
atgc intronic sequence ATGC exonic sequenceAAGAGGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagctatgttgtcatctgatcccaattttgtagccgcatcaattatttctagcattttttgctgtgttcactgatgacaaaaatgttagtcat...
Basic information
species | Glycine max |
transcript | GLYMA20G33590.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G33590.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os11g05880.1 (Oryza sativa), 5'ss of exon 7
AAGAGGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagctatgttgtcatctgat-cccaattttgtagccgcatcaattatttctagcattttttgctgtgttcactgatgacaaaaatgttagtcat-----
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AGGAGGCTGTTGAAAAGGATGCTTCGAAGACTATTGTTAATGATGGAACTGTGCATCCTTTGACTAGCTATGTGATTAATTATGTTAAATTCTTATTTGAgtaagt---actcacttttaacttagtattcaaattcatggacatgtagatt-cgtaaatcactacaatttgagtgaggt-atggtacaa-tgatcgcgatgagta
upper sequence: GLYMA20G33590.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os04g58880.1 (Oryza sativa), 5'ss of exon 7
AAGAGGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagctatgttgtcatctgatccc------aattttgtagccgcatca--attatttctagcattttttgctgtgttcactgatgacaaaaatgttagtcat
|||| || ||||| || || || ||||||| | | ||||| || || |||||| | || ||||| || ||||||||||| || ||||||||||||||||| | | || | ||| ||||| ||| |||| || ||||| |||||| || | | | | || | ||| |
AAGAAGCTGTTGAAAAGGACGCAACAAAGAATATTCATATTGATGGGACAGTGCATCCTTTGACGAGCTACGTGATTAACTATGTCAAATTTTTATTTGAgtaagtatatgatcatgtgcacttaatctttcctgtaatttgatagttgcattgctatactttcttgcatttcttcttcaatcc--tatccaccagtatgct------
upper sequence: GLYMA20G33590.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os12g06270.1 (Oryza sativa), 5'ss of exon 7
AAGAGGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagctatgttgtcatctgatcccaattttgtagccgcatcaattatttctagcattttttgctgtgttcactgatgacaaaaatgttagtcat------
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AGGAGGCAGTTGAAAAGGATACTTCCAAGACTATTGTGCAGGATGGGACGGTCCATCCTTTGACTAGCTATGTTATTAATTATGTCAAATTTCTATTTGAgtaagtatcactat--taccacat--tcttggacatgtagaagatttgtgtgactgtagtaacta--gttgcaatcacaaatagttttaacacatatcttcgagta
upper sequence: GLYMA20G33590.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G074530_T01 (Zea mays), 5'ss of exon 1
AAGAGGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagt--tcagctatgttgtcatctgatcccaattttgtagccgcatcaattatttctagcattttttgctgtgttcactgatgacaaaaatgttagtcat
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AAGAAGCTGTTGAAAAGGATGCAACAAAGAATATTCATACTGATGGAACAGTTCATCCTTTAACAAGCTATGTGATCAACTATGTTAAGTTTTTGTTTGAgtaagtatctaatcaaatccgcatgcaatttatgtgttgttata--aatgaataggtgtacaagatttgtccttatccatgtgcctttccttttctaattat
upper sequence: GLYMA20G33590.1 (Glycine max), 5'ss of exon 7
lower sequence: AT5G03540.3 (Arabidopsis thaliana), 5'ss of exon 8
AAGAGGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagc-tatgttgtcatctgat--cccaattttgtagccgcatcaattatttc--tagcattttttgc----tgtgttcactgatgacaaaaatgttagtcat---------
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AAGAAGCTGTTGAGAAAGATGCTACAAAGACTGCTGTTCTAGATGGAACTGTCCACCCACTAACAAGCTATGTCATCAATTATGTCAAGTTTTTATTCGAgtaagtacatcatatatactcaacttatttcctcgaactatttgcgtattgttcttctccatactgctatttgcgtattgtccctttccacgctttaattgatgatcattggtgtcag
upper sequence: GLYMA20G33590.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv13s0073g00170.t01 (Vitis vinifera), 5'ss of exon 7
AAGAGGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttc----agctatgttgtcatctgatcccaattttgtagccgcatcaattatttctagcattttttgctgtgttcactgatgacaaaaatgttagtcat
|||| |||||||| |||||||| ||||| ||||| || | ||||||||||| |||||| | ||||||||||| || ||||||||||||||| | |||||||||| | || ||||| |||| | | | | | | || || ||| | || | | || || | | ||||
AAGAAGCAGTTGAAAAAGATGCAACAAAAACTGCTGTGTCTGATGGAACTGTTCATCCTTTGACAAGCTATGTGATCAACTATGTGAAGTTTCTTTTTGAgtaagcccctctgactgtgttgctatct---tctagctccattcttttgggcaagacagataacagtttcatccatgctaattggtggtatttctattagggt-
upper sequence: GLYMA20G33590.1 (Glycine max), 5'ss of exon 7
lower sequence: PP1S39_74V6.1 (Physcomitrella patens), 5'ss of exon 7
AAGAGGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaag---ttcagctatgttgtcatctgatcccaattttgtagccgcat-caattatttctagcattttttgctgtgttcactgatgacaaaaatgttagtcat
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AAGATGCTGTGTCAACAGATGCGACAAAGACGCCTGTTTTGGATGGAACAGTCCATCCCCTCACAAGCTATGTCATTAATTATGTCAAATTTCTTTTTGAgtaagagctctctctctctcggtatatacacacacatatacactcacaaacacacacttttag--ttagttggtttatttg-tcttcttttatttggttttta-
upper sequence: GLYMA20G33590.1 (Glycine max), 5'ss of exon 7
lower sequence: EFJ31732 (Selaginella moellendorffii), 5'ss of exon 7
AAGAGGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagctatgttgtcatctgatcccaattttgtagccgcatcaattatttctagcattttttgctgtgttcactgatgacaaaaatgttagtcat
|| || || ||||| ||||| || ||||| ||||| |||||| || || |||||||| || |||||||| || ||||| |||||||| | |||||||||||||| ||| | | |||| ||| ||| | || || ||||
TCGAAGCTGTGGAGAAGGATGCGACGAAGACACCAGTACAAGATGGCACAGTGCATCCTCTTACTAGCTATGTTATCAACTACGTGAAGTTCCTCTTTGAgtaagttcaagtattt------ccaatccttttttcatagtt---tggatggttcctag-----------------------------------------
upper sequence: GLYMA20G33590.1 (Glycine max), 5'ss of exon 7
lower sequence: EFJ38418 (Selaginella moellendorffii), 5'ss of exon 7
AAGAGGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagctatgttgtcatctgatcccaattttgtagccgcatcaattatttctagcattttttgctgtgttcactgatgacaaaaatgttagtcat
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TCGAAGCTGTGGAGAAGGATGCGACGAAGACACCAGTACAAGATGGCACAGTGCATCCTCTTACTAGCTATGTTATCAACTACGTGAAGTTCCTCTTTGAgtaagttcaagtatttt------caatcc---ttttttaatagtttggatggttcctag-----------------------------------------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|17023421|gb|BM094455.1|BM094455EST: GTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGA CTACCAATCCACCTTGAAGCAACTTTTTCAGGAATTTGAAGGTGGTGATGA
genomic: GTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcag ... aactttgcagCTACCAATCCACCTTGAAGCAACTTTTTCAGGAATTTGAAGGTGGTGATGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGAGGCAGTTGAGAAAGATGCTACAAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagctatgttgtcatctgatcccaattttgtagccgcatcaattatttctagcattttttgctgtgttcactgatgacaaaaatgttagtcat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gacaaaaa