Sequence
atgc intronic sequence ATGC exonic sequencegtatggatgatgggtttagagatttcttttttcctgtgacactgctgaggtttataatgatactgaataagaattgcttgtctgtccccagGCATTGGAGTCGCCACACCCCTGAGGGTGCTGCACTTGAAGCTGAGTGGAATGCTAAGTTTGCTGAGTATGAAAAGAAATACAAGGAGGAGGCTGCAGAA
Basic information
species | Glycine max |
transcript | GLYMA03G03200.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G03200.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os06g04270.1 (Oryza sativa), 3'ss of exon 5
gtatggatgatgggtttagagatttctt--ttttcctgtgacactgctgaggtttataatgatactgaataagaattgcttgtctgtccc----cagGCATTGGAGTCGCCACACCCCTGAGGGTGCTGCACTTGAAGCTGAGTGGAATGCTAAGTTTGCTGAGTATGAAAAGAAATACAAGGAGGAGGCTGCAGAA
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---------gtttgtctattgttgttttggttatctgaatgagatgttgaaatttcatagcactcaccttatggtttatttgcatgggctgttacagCCACTGGAGCCGCCATGTGCCTCAAGGTGCTGCTTTTGAGGCTGACTGGAATGCTAAGTTCGCCGAGTATGAGAAGAAGTACCCAGAAGATGCAGCGACC
upper sequence: GLYMA03G03200.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G010494_T01 (Zea mays), 3'ss of exon 5
----------gtatggatgatgggtttagagatttcttttttcctgtgacactgctgaggtttataatgatactgaataagaattgcttgtctgtccccagGCATTGGAGTCGCCACACCCCTGAGGGTGCTGCACTTGAAGCTGAGTGGAATGCTAAGTTTGCTGAGTATGAAAAGAAATACAAGGAGGAGGCTGCAGAA
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tttgttaaaaatatttatgctcagagtaaagagtaaattaatgtatttaaactcaatacgttctgcacacaagtgtaattacataacttatcaatcgc-agGCACTGGAGTCGCCATATCGATGAGGGTGCTTCACTTGAAGCTGAATGGAATGCCAGGTTTGTAGAATATGAAAAGAAATACAACCAGGAGGCTGCTGAG
upper sequence: GLYMA03G03200.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G033208_T01 (Zea mays), 3'ss of exon 5
---gtatggatgatgggtttagagatttcttttttcctgtgacactgctgaggtttataatgatactgaataagaattgcttgtctgtccccagGCATTGGAGTCGCCACACCCCTGAGGGTGCTGCACTTGAAGCTGAGTGGAATGCTAAGTTTGCTGAGTATGAAAAGAAATACAAGGAGGAGGCTGCAGAA
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gttggtctaccctttgttctagtaatctagttatctcaatgggtttgtcaaa-tgcatagcaatcatataatttccttgaatggatcattgcagTCACTGGAGCCGCCACACACCCGAAGGTGCTGCACTTGAGGCTGATTGGAACGCTAAGTTTGCAGAGTACGAGAAGAAGTATGCAGATGATGCAGCAACC
upper sequence: GLYMA03G03200.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G45290.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatggatgatgggtttagagatttcttttt-----tcctgtgacactgctgaggtttataatgatactgaataagaattgcttgtctgtccccagGCATTGGAGTCGCCACACCCCTGAGGGTGCTGCACTTGAAGCTGAGTGGAATGCTAAGTTTGCTGAGTATGAAAAGAAATACAAGGAGGAGGCTGCAGAA
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gtaagtagaacttaactatgcacttctatttatggttatggttgtggtatgagaacctgctttggtaatttactataatt-cttatgt-tttctagCCATTGGAGCCGTCACACGCCCGAAGGGGCTGCTCTTGAAGCTGATTGGAATGCCAAATTTGCAGCTTATGAGAAGAAATATCCGGAGGAAGCTGCAGAG
upper sequence: GLYMA03G03200.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv16s0022g01440.t01 (Vitis vinifera), 3'ss of exon 5
gtatggatgatgggtttagagatttcttttttcctgtgacactgctgaggtttataatgatactgaataagaattgcttgtctgtccccagGCATTGGAGTCGCCACACCCCTGAGGGTGCTGCACTTGAAGCTGAGTGGAATGCTAAGTTTGCTGAGTATGAAAAGAAATACAAGGAGGAGGCTGCAGAA
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gtattgaaattgag----aaggttgcttttgcttcatgtttcaaattaagtttg----aatccttta-gtgagcttcttgtgt-ttcacagGCACTGGAGCCGCCACATCCCTGATGGAGCTGCCCTTGAAGCTGAATGGAATGCCAAGTTTGCAGAGTATGAGAAGAAATACAAAGAAGAAGCAGCAGAAMapped 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|14990336|gb|BI316009.1|BI316009EST: AACCTTGGATGGTCACATGAGCCATTCCACGTGCCTGAGGATGTCAAAAA GCATTGGAGTCGCCACACCCCTGAGGGTGCTGCACTTGAAGCTGAATGGAA
genomic: AACCTTGGATGGTCACATGAGCCATTCCACGTGCCTGAGGATGTCAAAAAgtatggatga ... ctgtccccagGCATTGGAGTCGCCACACCCCTGAGGGTGCTGCACTTGAAGCTGAGTGGAA
EST:
gi|6567239|gb|AW234850.1|AW234850EST: TGGTCACATGAGCCATTCCACGTGCCTGAGGATGTCAAAAA GCATTGGAGTCGCCACACCCCTGAGGGTGCTGCACTTGAAGCTGAATGGAA
genomic: TGGTCACATGAGCCATTCCACGTGCCTGAGGATGTCAAAAAgtatggatga ... ctgtccccagGCATTGGAGTCGCCACACCCCTGAGGGTGCTGCACTTGAAGCTGAGTGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgacactgctgaggtttataatgatactgaataagaattgcttgtctgtccccagGCATTGGAGTCGCCACACCCCTGAGGGTGCTGCACTTGAAGCTGAGTGGAATGCTAAGTTTGCTGAGTATGAAAAGAAATACAAGGAGGAGGCTGCAGAA
tctgtcccc CT-rich tract
tttataatgatact TA-rich tract
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 |
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gtatggatgatgggtttagagatttcttttttcctgtgacactgctgaggtttataatgatactgaataagaattgcttgtctgtccccagGCATTGGAGTCGCCACACCCCTGAGGGTGCTGCACTTGAAGCTGAGTGGAATGCTAAGTTTGCTGAGTATGAAAAGAAATACAAGGAGGAGGCTGCAGAA
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