Sequence
atgc intronic sequence ATGC exonic sequenceAAGAGGCAGTTGAGAAAGATGCTACGAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagctatgttgtcatctgatcccaattttgtagccataccatcaattatttctagcattttttgctgtgttcactgatgacaaaaatgttagt...
Basic information
species | Glycine max |
transcript | GLYMA10G34000.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G34000.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os11g05880.1 (Oryza sativa), 5'ss of exon 7
AAGAGGCAGTTGAGAAAGATGCTACGAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagctatgttgtcatctgat-cccaattttgtagccatacca--tcaattatttctagcattttt-tgctgtgttcactgatgacaaaaatgttagt-
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AGGAGGCTGTTGAAAAGGATGCTTCGAAGACTATTGTTAATGATGGAACTGTGCATCCTTTGACTAGCTATGTGATTAATTATGTTAAATTCTTATTTGAgtaagt---actcacttttaacttagtattcaaattcatggacatgtagattcgtaaatcactacaatttgagtgaggtatggtacaatgatcgcgatg--agta
upper sequence: GLYMA10G34000.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os04g58880.1 (Oryza sativa), 5'ss of exon 7
AAGAGGCAGTTGAGAAAGATGCTACGAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagctatgttgtcatctgatccc------aattttgtagccataccatcaattatttctagcattttttgctgtgttcactgatgacaaaaatgttagt
|||| || ||||| || || || || |||| | | ||||| || || |||||| | || ||||| || ||||||||||| || ||||||||||||||||| | | || | ||| ||||| ||| | | | ||||| |||||| || | | | | || | ||| |
AAGAAGCTGTTGAAAAGGACGCAACAAAGAATATTCATATTGATGGGACAGTGCATCCTTTGACGAGCTACGTGATTAACTATGTCAAATTTTTATTTGAgtaagtatatgatcatgtgcacttaatctttcctgtaatttgatagttgcattgcta-tactttcttgcatttcttcttcaatcc--tatccaccagtatgct---
upper sequence: GLYMA10G34000.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os12g06270.1 (Oryza sativa), 5'ss of exon 7
AAGAGGCAGTTGAGAAAGATGCTACGAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagctatgttgtcatctgatcccaattttgtagccataccat-caattatttctagcattttttgctgtgttcactgatgacaaaaatgttagt---
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AGGAGGCAGTTGAAAAGGATACTTCCAAGACTATTGTGCAGGATGGGACGGTCCATCCTTTGACTAGCTATGTTATTAATTATGTCAAATTTCTATTTGAgtaagtatcactat--taccacat--tcttggacatgtagaagatttgtgtgactgtagtaactagttgcaatcacaaatagttttaacacatatcttcgagta
upper sequence: GLYMA10G34000.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G074530_T01 (Zea mays), 5'ss of exon 1
AAGAGGCAGTTGAGAAAGATGCTACGAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagctatgttgtcatctgatcccaattttgtagccataccatcaattatttctagcattttttgctgtgttcactgatgacaaaaatgttagt---
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AAGAAGCTGTTGAAAAGGATGCAACAAAGAATATTCATACTGATGGAACAGTTCATCCTTTAACAAGCTATGTGATCAACTATGTTAAGTTTTTGTTTGAgtaagt--atcta-atcaaatccgcatgcaatttatgtgttgttataaatgaataggtgtacaagatttgtccttatccatgtgcctttccttttctaattat
upper sequence: GLYMA10G34000.1 (Glycine max), 5'ss of exon 7
lower sequence: AT5G03540.3 (Arabidopsis thaliana), 5'ss of exon 8
AAGAGGCAGTTGAGAAAGATGCTACGAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagc-tatgttgtcatctgatccc--------aattttgtag---------ccataccatcaattatttctagcattttttgctgtgttcactgatga-caaaaatgttagt
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AAGAAGCTGTTGAGAAAGATGCTACAAAGACTGCTGTTCTAGATGGAACTGTCCACCCACTAACAAGCTATGTCATCAATTATGTCAAGTTTTTATTCGAgtaagtacatcatatatactcaacttatttcctcgaactatttgcgtattgttcttctccatactgctatttgcgtattgtccctttccacgctttaattgatgatcattggtgtcag-
upper sequence: GLYMA10G34000.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv13s0073g00170.t01 (Vitis vinifera), 5'ss of exon 7
AAGAGGCAGTTGAGAAAGATGCTACGAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttc----agctatgttgtcatctgatcccaattttgtagccataccatcaattatttctagcattttttgctgtgttcactgatgacaaaaatgttagt--
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AAGAAGCAGTTGAAAAAGATGCAACAAAAACTGCTGTGTCTGATGGAACTGTTCATCCTTTGACAAGCTATGTGATCAACTATGTGAAGTTTCTTTTTGAgtaagcccctctgactgtgttgctatct---tctagctccat--tcttttgggcaag-acagataacagtttcatccatgctaattggtggtatttctattagggt
upper sequence: GLYMA10G34000.1 (Glycine max), 5'ss of exon 7
lower sequence: PP1S39_74V6.1 (Physcomitrella patens), 5'ss of exon 7
AAGAGGCAGTTGAGAAAGATGCTACGAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaag---ttcagctatgttgtcatctgatcccaattttgtagccataccatcaattatttctagc--attttttgctgtgttcactgatgacaaaaatgttagt
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AAGATGCTGTGTCAACAGATGCGACAAAGACGCCTGTTTTGGATGGAACAGTCCATCCCCTCACAAGCTATGTCATTAATTATGTCAAATTTCTTTTTGAgtaagagctctctctctctcggtatatacacacacatatacactcaca--aacacacacttttagttagttggtttatttgtcttctt-ttatttggttttta--
upper sequence: GLYMA10G34000.1 (Glycine max), 5'ss of exon 7
lower sequence: EFJ31732 (Selaginella moellendorffii), 5'ss of exon 7
AAGAGGCAGTTGAGAAAGATGCTACGAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagctatgttgtcatctgatcccaattttgtagccataccatcaattatttctagcattttttgctgtgttcactgatgacaaaaatgttagt
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TCGAAGCTGTGGAGAAGGATGCGACGAAGACACCAGTACAAGATGGCACAGTGCATCCTCTTACTAGCTATGTTATCAACTACGTGAAGTTCCTCTTTGAgtaagttcaagtat------------ttccaatccttttttcatagtttggatggttcctag--------------------------------------
upper sequence: GLYMA10G34000.1 (Glycine max), 5'ss of exon 7
lower sequence: EFJ38418 (Selaginella moellendorffii), 5'ss of exon 7
AAGAGGCAGTTGAGAAAGATGCTACGAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagctatgttgtcatctgatcccaattttgtagccataccatcaattatttctagcattttttgctgtgttcactgatgacaaaaatgttagt
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TCGAAGCTGTGGAGAAGGATGCGACGAAGACACCAGTACAAGATGGCACAGTGCATCCTCTTACTAGCTATGTTATCAACTACGTGAAGTTCCTCTTTGAgtaagttcaagtatttt------caatccttttttaatagtt------tggatggttcctag--------------------------------------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|151397587|gb|EV267460.1|EV267460EST: GTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAG-TTTTATTTGA CTACCAATCCACCTTGAAGCAACTTTTTCAGGAATTTGAGGGTGGTGAGGA
genomic: GTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcag ... aactttgcagCTACCAATCCACCTTGAAGCAACTTTTTCAGGAATTTGAGGGTGGTGAGGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAGAGGCAGTTGAGAAAGATGCTACGAAGACTGCAGTAACAGATGGAACTGTCCATCCTCTAACAAGCTATGTAATTAACTATGTGAAGTTTTTATTTGAgtaagttcagctatgttgtcatctgatcccaattttgtagccataccatcaattatttctagcattttttgctgtgttcactgatgacaaaaatgttagt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gacaaaaa