Sequence
atgc intronic sequence ATGC exonic sequenceGTTCACAACATACGCCCAAAAATGGTTTCTGTACTTCGTGAGAAGTTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGATgtaagtaataattttcatggcatgatgtagtgattttatttttggtgataagtcaacagatcttaatttaaatatactccccag
Basic information
species | Glycine max |
transcript | GLYMA09G39800.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G39800.1 (Glycine max), 5'ss of exon 9
lower sequence: LOC_Os04g58580.2 (Oryza sativa), 5'ss of exon 8
GTTCACAACATACGCCCAAAAATGGTTTCTGTACTTCGTGAGAAGTTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGATgtaagtaata-attttcatg-gcatgatgtagtgattttatttttggtgataagtcaacagatcttaatttaaatatactccccag
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GTACATAACATTCGGCCTAAAATGGTCTCAGTGCTTCGTGAAAAGTTCGCCCACTTGAACTTGACATTTTCTATTGGAGGGCAGATTAGTTTTGATgtaagccttctatcctcatacaaatgtgccagaaattattggtttcatgatatttactgctgtatcactttaacag----------
upper sequence: GLYMA09G39800.1 (Glycine max), 5'ss of exon 9
lower sequence: GRMZM2G165535_T05 (Zea mays), 5'ss of exon 9
GTTCACAACATACGCCCAAAAATGGTTTCTGTACTTCGTGAGAAGTTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGATgtaagtaataattttcatggcatgatgtagtgattttatttttggtgat--aagtca--acagatcttaatttaaatatact-ccccag
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GTGCATAACATCCGACCTAAAATGGTGTCAGTGCTTCGTGAAAAGTTTGCACACATGAACTTGACATTTTCTATCGGAGGGCAGATTAGTTTTGATgtgagtctcctagaccaccagtacatgtatttatttt-cttgaaatgattgaaatcatgacatttactaatgccactaaaaaattccag
upper sequence: GLYMA09G39800.1 (Glycine max), 5'ss of exon 9
lower sequence: AT2G45790.1 (Arabidopsis thaliana), 5'ss of exon 7
GTTCACAACATACGCCCAAAAATGGTTTCTGTACTTCGTGAGAAGTTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGATgtaagtaataattttcatg-gcatgatg-tagtgattttatttttggtgataagtcaacagatcttaatttaaatat-actccccag
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GTTCAAAACATCCGACCAAAGATGGTAGCTGAACTTCGTGAGCGGTTTGCACATCTTAACCTTACTTTCTCAATTGGGGGACAGATAAGCTTCGATgtgagtag-aatcaaaatgtggattataacaatttcttaaatccattttttgagtca-ctgagtctaatcaaattgttatgacttag
upper sequence: GLYMA09G39800.1 (Glycine max), 5'ss of exon 9
lower sequence: Vv15s0046g03520.t01 (Vitis vinifera), 5'ss of exon 8
GTTCACAACATACGCCCAAAAATGGTTTCTGTACTTCGTGAGAAGTTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGATgtaagt----aataattttcatggcatgatgtagtgattttatttttggtg---ataagtcaacagatc-ttaatttaaatatactccccag
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ATTCACAACATACGTCCGAAGATGGTTTCTGTGCTTCGTGAGAAGTTTGCTCACCTAAACCTGACATTTTCTATTGGAGGACAAATAAGCTTTGATgtgagtgtccattcatctttatttt-tgctttgatgattcgaaaactagtatcaatgactgaatgtattgctggtcataatgcttgtgacagMapped 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|151397333|gb|EV267206.1|EV267206EST: TTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGAT GTTTTCCCTCAAG-TTGGGACAAAACATACTGCCTGAGATACCTTGATGGT
genomic: TTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGATgtaagtaata ... tactccccagGTTTTCCCTCAAGGTTGGGACAAAACATACTGCCTGAGATACCTTGATGGT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTCACAACATACGCCCAAAAATGGTTTCTGTACTTCGTGAGAAGTTTGCTCATCTTAACTTGACATTCTCCATTGGAGGACAGATAAGTTTTGATgtaagtaataattttcatggcatgatgtagtgattttatttttggtgataagtcaacagatcttaatttaaatatactccccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA