Sequence
atgc intronic sequence ATGC exonic sequence...tagtagttacatcatttatttaccgactctttaatttttcctttgctgccattgatacctattaacattttttgtccttcataattaatttcatttacagGTCGCTAAAGAAAATGCTGATGTCATTATAATGGATGATAACTTCACGACTATTGTCAATGTTGTCAAATGGGGACGTGCAGTATATATAAACATTCAAA
Basic information
species | Glycine max |
transcript | GLYMA03G29010.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G29010.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G305159_T02 (Zea mays), 3'ss of exon 5
--tagtagttacatcatttatttaccgactct-ttaatttttcctttgctgccattgatacctattaacattttttgtccttcataattaatttcatttacagGTCGCTAAAGAAAATGCTGATGTCATTATAATGGATGATAACTTCACGACTATTGTCAATGTTGTCAAATGGGGACGTGCAGTATATATAAACATTCAAA
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cttagctgagattgtatttgttattccattcaactaggcttttcttta-tgatacaaattgttagtgtagatttatgatgcaaatgtttggctggat--gcagGTCGCAAAAGAAAATGCCGATGTTATAATAATGGATGATAATTTCAGTACCATTGTAAATGTTGCTAGATGGGGTCGTGCGGTTTACTTGAACATTCAGA
upper sequence: GLYMA03G29010.1 (Glycine max), 3'ss of exon 5
lower sequence: AT2G41560.1 (Arabidopsis thaliana), 3'ss of exon 4
tagtagttacatcatttatttaccgactctttaatttttcctttgctgccattgatacct----attaacattttttgtccttcataattaatttcatttacagGTCGCTAAAGAAAATGCTGATGTCATTATAATGGATGATAACTTCACGACTATTGTCAATGTTGTCAAATGGGGACGTGCAGTATATATAAACATTCAAA
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----------gtaagctat--agttattctctgttattggtttggttaataaaaaaatctcgagattaacattttcgtttggtgctaatt--cccgatatgcagGTTGCGAAAGAGAATGCTGATGTGATCATAATGGACGATAACTTCAAAACAATAGTAAATGTGGCTAGATGGGGACGTGCTGTATATATAAACATTCAGA
upper sequence: GLYMA03G29010.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv08s0007g08960.t01 (Vitis vinifera), 3'ss of exon 4
--tagtagttacatcatttatttaccgactctttaatttttcctttgctgccattgatacctattaacattttttgtccttcataattaatttcatttacagGTCGCTAAAGAAAATGCTGATGTCATTATAATGGATGATAACTTCACGACTATTGTCAATGTTGTCAAATGGGGACGTGCAGTATATATAAACATTCAAA
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acttgtagg-atgcaacctgtcctgctacttattc-cagtgctattcctgcttttgcattattcttgaacttacccatatatacatggtatgttatctatagGTTGCCAAAGAAAATGCTGATGTCATCATAATGGACGATAATTTTGCCACTATAGTAAATGTAGCCAAATGGGGCCGTGCAGTATATATAAACATTCAAAMapped 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|192300347|gb|FG991449.1|FG991449EST: CACTGCGTGAGGCAGACATTGGACTTGCAATGGGCATAGCAGGAACTGAG GTCGCTAAAGAAAATGCTGATGTCATTATAATGGATGATAACTTCACGACT
genomic: CACTGCGTGAGGCAGACATTGGACTTGCAATGGGCATAGCAGGAACTGAGgtttgtatct ... tcatttacagGTCGCTAAAGAAAATGCTGATGTCATTATAATGGATGATAACTTCACGACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgccattgatacctattaacattttttgtccttcataattaatttcatttacagGTCGCTAAAGAAAATGCTGATGTCATTATAATGGATGATAACTTCACGACTATTGTCAATGTTGTCAAATGGGGACGTGCAGTATATATAAACATTCAAA
tttcattt CT-rich tract
ttcataattaatttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagtagttacatcatttatttaccgactctttaatttttcctttgctgccattgatacctattaacattttttgtccttcataattaatttcatttacagGTCGCTAAAGAAAATGCTGATGTCATTATAATGGATGATAACTTCACGACTATTGTCAATGTTGTCAAATGGGGACGTGCAGTATATATAAACATTCAAA
- - - - - - - - - - - - - - - - - - - -cctttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - tgatacc