Sequence
atgc intronic sequence ATGC exonic sequencegtgacttttacttattctgtttgcatacaacttttcattttgatgagttttccaaatgaagttctcatagtgataattttactgtaaactatttctctgacagAGAAGTATGAACCTGTTCATGCTAAGTGGACTACAGAACGCTGTGCTGTTTGTAGATGGGTTGAAGACTGGGACTACAACAAAATTATCATTTGCAACAG
Basic information
species | Glycine max |
transcript | GLYMA06G13330.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G13330.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os01g46700.1 (Oryza sativa), 3'ss of exon 10
gtgacttttacttattctg---tttgcatacaacttttcattttgatgagttttccaaatgaagttctcatagtgataattttactgtaaactatttctctgacagAGAAGTATGAACCTGTTCATGCTAAGTGGACTACAGAACGCTGTGCTGTTTGTAGATGGGTTGAAGACTGGGACTACAACAAAATTATCATTTGCAACAG
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gtaactcaacttcaatttagatcttccaagttgcctgtagtattgaatgatccttctcacaagggaattggattgatggagttaaaatttatt-tacattttacagAACCATATGATACTGTAAATGTAAAATGGACAACAGAAAGATGTGCAGTCTGTAGATGGGTTGAAGACTGGGATTACAACAAAATTGTAATCTGTAACAG
upper sequence: GLYMA06G13330.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G170412_T01 (Zea mays), 3'ss of exon 10
gtgacttttacttattctgtttgcatacaacttttcattttgatgagttttccaaatgaagttctcatagtgataattttactgtaaactatttctctgacagAGAAGTATGAACCTGTTCATGCTAAGTGGACTACAGAACGCTGTGCTGTTTGTAGATGGGTTGAAGACTGGGACTACAACAAAATTATCATTTGCAACAG
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gtataaagctttcattttaatcttagtagcttagttgttttgaagatacttctcccagcagatttgaattcgtggagcttg----aatttgtttcccatgcagACCCATATGATCCTGTAAATGTAAAATGGACGACAGAAAGATGTGCAGTCTGTAGATGGGTTGAAGATTGGGATTACAACAAAATTGTGATTTGTAATAG
upper sequence: GLYMA06G13330.1 (Glycine max), 3'ss of exon 11
lower sequence: AT4G27910.1 (Arabidopsis thaliana), 3'ss of exon 10
gtgacttttacttattctgtttgca-tacaacttttcattttgatg-agttttccaaatgaagttctcatagtgataattttactgtaaactatttct-ctgacagAGAAGTATGAACCTGTTCATGCTAAGTGGACTACAGAACGCTGTGCTGTTTGTAGATGGGTTGAAGACTGGGACTACAACAAAATTATCATTTGCAACAG
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-------------gtagaaaaggaaatggaatcctgtaacatgttgcagtgttttgagtg---tttttgtgatgcttttgttggcttttcctttcgttgttggcagAGACATATGAGCCGGTCAATGCGAAGTGGACAACAGAACGATGTGCAGTTTGCAGATGGGTTGAAGATTGGGACTACAACAAGATTATTATCTGCAACAG
upper sequence: GLYMA06G13330.1 (Glycine max), 3'ss of exon 11
lower sequence: AT5G53430.1 (Arabidopsis thaliana), 3'ss of exon 10
gtgacttttacttattctgtttgcatacaacttttca-----ttttgatgagttttccaaatgaagttctcatagtgataattttactgtaaactatttctctgacagAGAAGTATGAACCTGTTCATGCTAAGTGGACTACAGAACGCTGTGCTGTTTGTAGATGGGTTGAAGACTGGGACTACAACAAAATTATCATTTGCAACAG
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---gtattaagcaattcggatctcaga-acttatccaaaactttctgctgcgttt------tgcgctgcttatactgg-agtgttttttttcattatt-----ggcagAAAAGTATGAGCCGGTCAACGTGAAATGGACAACCGAGCGATGTGCAGTTTGCAGATGGGTGGAAGATTGGGACTACAACAAGATCATTATCTGCAACAGMapped 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|208308933|gb|GE101647.1|GE101647EST: GAAACCTTCTCTAAAAGAAAGAAAGCAGAAGTTGCTTACCTTCTTGCAAG AGAAGTATGAACCTGTTCATGCTAAGTGGACTACAGAACGCTGTGCTGTTT
genomic: GAAACCTTCTCTAAAAGAAAGAAAGCAGAAGTTGCTTACCTTCTTGCAAGgtgactttta ... tctctgacagAGAAGTATGAACCTGTTCATGCTAAGTGGACTACAGAACGCTGTGCTGTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttccaaatgaagttctcatagtgataattttactgtaaactatttctctgacagAGAAGTATGAACCTGTTCATGCTAAGTGGACTACAGAACGCTGTGCTGTTTGTAGATGGGTTGAAGACTGGGACTACAACAAAATTATCATTTGCAACAG
ctatttctct CT-rich tract
ataattttactgtaaa 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 |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgacttttacttattctgtttgcatacaacttttcattttgatgagttttccaaatgaagttctcatagtgataattttactgtaaactatttctctgacagAGAAGTATGAACCTGTTCATGCTAAGTGGACTACAGAACGCTGTGCTGTTTGTAGATGGGTTGAAGACTGGGACTACAACAAAATTATCATTTGCAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA