Sequence
atgc intronic sequence ATGC exonic sequence...atgatagatctggaacaccttacaactactattttctggtctctttcctcttaatcattgtatctaacaataaaagtgctgattttgcctatatttgaagGAACTGTACCTCTTCCGTGGTCCAACAGGATTAAGATTGCCCTTGGTGCAGCAAAAGGATTGGCCTTCCTCCATAATGGTCCCGAACCAGTCATTTATAG
Basic information
species | Glycine max |
transcript | GLYMA17G12060.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G12060.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G410191_T02 (Zea mays), 3'ss of exon 7
---atgatagatctggaacaccttacaactactattttctggtctctttcctcttaatcattgtatctaacaataaaagtgctgattttgcctatatttgaagGAACTGTACCTCTTCCGTGGTCCAACAGGATTAAGATTGCCCTTGGTGCAGCAAAAGGATTGGCCTTCCTCCATAATGGTCCCGAACCAGTCATTTATAG
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acaaagttgattttattttatgtgcctaatcttgtcaaccataatctttctacctgctcgttct-tatgatcctgtcat--cttactttgtttaatcttgaagGGACCCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGCTCTAGGTGCCGCGAAAGGACTAGCCTTCCTCCATGGAGGTCCCAAACATGTTATTTACAG
upper sequence: GLYMA17G12060.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G014596_T01 (Zea mays), 3'ss of exon 3
-atgatagatctggaacaccttacaactactattttctggtctctttcctcttaatcattgtatctaacaataaaagtg-ctgattttgcctatatttgaagGAACTGTACCTCTTCCGTGGTCCAACAGGATTAAGATTGCCCTTGGTGCAGCAAAAGGATTGGCCTTCCTCCATAATGGTCCCGAACCAGTCATTTATAG
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aaaagttgatttt-atttttatgtgcctaatcttgtc-aaccataatctttctatctgctcgttcttatgatcctgtcatcttactttgtttaatcttgaagGGGCTCTTCCCCTACCTTGGTCCAACAGGATGAAGATTGTTCTAGGTGCCGCGAAAGGAGTAGCCTTCCTCCATGGAGGTCCCAAACCTGTTATTTACAG
upper sequence: GLYMA17G12060.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv11s0016g05720.t01 (Vitis vinifera), 3'ss of exon 3
atgatagatctggaacaccttacaactactattttctggtctctttcctcttaatcattgtatctaacaataaaagtgctgattttgcctata--tttgaagGAACTGTACCTCTTCCGTGGTCCAACAGGATTAAGATTGCCCTTGGTGCAGCAAAAGGATTGGCCTTCCTCCATAATGGTCCCGAACCAGTCATTTATAG
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-ttttttattcagtatgacagcccatttctactctttt-taaaatggaactaattcactttgtgttatcatacatatgctgatgttatctcaaatcttgaagGGACCATACCTCTTCCATGGTCCAACAGGATTAAGATTGCACTTGGTGCAGCAAAAGGGCTGGCCTTTCTCCACGAGGGTCCTGAACCTGTTATTTACAGMapped 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|10232151|gb|BE801039.1|BE801039EST: TGTTTACGAGTTTATGACCCGTGGAAGTCTAGAAAATCATCTATTCAGAAA GAACCGTACCTCTTCCGTGGTCCAACAGGATTAAGATTGCCCTTGGTGCA
genomic: TGTTTACGAGTTTATGACCCGTGGAAGTCTAGAAAATCATCTATTCAG-AAgtgagtttct ... atatttgaagGAACTGTACCTCTTCCGTGGTCCAACAGGATTAAGATTGCCCTTGGTGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctcttaatcattgtatctaacaataaaagtgctgattttgcctatatttgaagGAACTGTACCTCTTCCGTGGTCCAACAGGATTAAGATTGCCCTTGGTGCAGCAAAAGGATTGGCCTTCCTCCATAATGGTCCCGAACCAGTCATTTATAG
tatctaacaataaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgatagatctggaacaccttacaactactattttctggtctctttcctcttaatcattgtatctaacaataaaagtgctgattttgcctatatttgaagGAACTGTACCTCTTCCGTGGTCCAACAGGATTAAGATTGCCCTTGGTGCAGCAAAAGGATTGGCCTTCCTCCATAATGGTCCCGAACCAGTCATTTATAG
- - - - - - - - -ccttaca
- - - - - - - - - - - - - - - - tttctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aataaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctgat