Sequence
atgc intronic sequence ATGC exonic sequencegtttgatttcttatctgaatgggatgtaattctttgctgcataatgccattttttactgattattccatttgtaatggttttacaacattaattttcgtctgttgccattgggttgattttcctgcagAGTATTGGACAAGCATATGACGACATGCAAACTCAAAACCAACATCTGTTGCAGCAGATTACTGAAAGAGATGATTATAATATTAAG
Basic information
species | Glycine max |
transcript | GLYMA01G13430.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G13430.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os04g46450.1 (Oryza sativa), 3'ss of exon 14
gtttgatttcttatctgaatgggatgtaattctttgctgcataatgccattttttactgattattccatttgtaatggttttacaacattaattttcgtctgttgccattgggttgattttcctgcagAGTATTGGACAAGCATATGACGACATGCAAACTCAAAACCAACATCTGTTGCAGCAGATTACTGAAAGAGATGATTATAATATTAAG
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------------------gtgtg-tgccatctttta-tgcatgcagt--tcaagtatggctttaaacatatattaaacattgtcatcctgagtttgaaacttttactaac---------ctattccagTGTATCGGGCAAGCATATGAGGACATACAGGCACAAAACCAACAATTGCTACAGCAGATTATTGAAAGAGATGATGATAATACCAAG
upper sequence: GLYMA01G13430.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv15s0021g02140.t01 (Vitis vinifera), 3'ss of exon 14
gtttgatttcttatctgaatgggatgtaattctttgctgcataatgccattttttactgattattcc--atttgtaatggttttacaacattaattttcgtctgttgccattgggttgattttcctgcagAGTATTGGACAAGCATATGACGACATGCAAACTCAAAACCAACATCTGTTGCAGCAGATTACTGAAAGAGATGATTATAATATTAAG
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--------------------------------------gta-agtttcccgttttattatttgaacagaatttgttattttagcacaaatgtgaaatagctctaagattgttaatctggtttcttgtcagACAATTGGGCAGGCATATGATGATATGCAGACTCAAAACCAACACCTATTGCAGCAAATCACTGAGAGAGATGACTATAACATTAAG
upper sequence: GLYMA01G13430.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ11831 (Selaginella moellendorffii), 3'ss of exon 14
gtttgatttcttatctgaatgggatgtaattctttgctgcataatgccattttttactgattattccatttgtaatggttttacaacattaattttcgtctgttgccattgggttgattttcctgcagAGTATTGGACAAGCATATGACGACATGCAAACTCAAAACCAACATCTGTTGCAGCAGATTACTGAAAGAGATGATTATAATATTAAG
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-----------------------------------------------------------------------gtaagattttta----gttttcttacatttat-gtctgtagttttctttttaaacagACTATCGGGCAAGCATATGAAGACATGCAAACTCAAAACCAAAGGCTTTTGCAGCAGATATCCGAAAGGGATGATTACAATACAAAG
upper sequence: GLYMA01G13430.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ22678 (Selaginella moellendorffii), 3'ss of exon 13
gtttgatttcttatctgaatgggatgtaattctttgctgcataatgccattttttactgattattccatttgtaatggttttacaacattaattttcgtctgttgccattgggttgattttcctgcagAGTATTGGACAAGCATATGACGACATGCAAACTCAAAACCAACATCTGTTGCAGCAGATTACTGAAAGAGATGATTATAATATTAAG
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-----------------------------------------------------------------------gtaagattttta----gttttctttcatttat-gtctgtaattttctttttaaacagACTATCGGGCAAGCATATGAAGACATGCAGACTCAAAACCAAAGGCTTTTGCAGCAGATATCCGAAAGGGATGATTACAATACAAAGMapped 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|192305627|gb|FG994337.1|FG994337EST: TCTTGAAATCTAAGAATAAACAAAATGAGAACTACTTATCTGAAATAGAG AGTATTGGACAAGCATATGACGACATGCAAACTCAAAACCAACATCTGTTG
genomic: TCTTGAAATCTAAGAATAAACAAAATGAGAACTACTTATCTGAAATAGAGgtttgatttc ... tttcctgcagAGTATTGGACAAGCATATGACGACATGCAAACTCAAAACCAACATCTGTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatggttttacaacattaattttcgtctgttgccattgggttgattttcctgcagAGTATTGGACAAGCATATGACGACATGCAAACTCAAAACCAACATCTGTTGCAGCAGATTACTGAAAGAGATGATTATAATATTAAG
ttttcctgc CT-rich tract
ttttacaacattaatt 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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gtttgatttcttatctgaatgggatgtaattctttgctgcataatgccattttttactgattattccatttgtaatggttttacaacattaattttcgtctgttgccattgggttgattttcctgcagAGTATTGGACAAGCATATGACGACATGCAAACTCAAAACCAACATCTGTTGCAGCAGATTACTGAAAGAGATGATTATAATATTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG