Sequence
atgc intronic sequence ATGC exonic sequencegtgaggattttcgtgaacttcatcttttccttatagttgttggcttgctttgaagaacatcccaccccctccccccaacacacacacaatttctgctgaatgtatattttgtagatctttactggtagtgcccttgaaacatattgacttccattattgcagCGTGATGTTGTTGTATCACATTTAGATAGTGGAAGACCTGTAGATGATGAAGGTGTTGAAGATGCTTTTGAGCTCTTACATGAAATGAATGAACGTGTCA
Basic information
species | Glycine max |
transcript | GLYMA15G01680.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os06g05180.1 (Oryza sativa), 3'ss of exon 14
gtgaggattttcgtgaacttcatcttttccttatagttgttggcttgctttgaagaacatcccaccccctccccccaacacacacacaatttctgctgaatgtatattttgtagatctttactggtagtgcccttgaaacatatt---gacttccattattgcagCGTGATGTTGTTGTATCACATTTAGATAGTGGAAGACCTGTAGATGATGAAGGTGTTGAAGATGCTTTTGAGCTCTTACATGAAATGAATGAACGTGTCA
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------------------------------gta-agttattgtattatctaaatgttcattatgttatttcttttctcctcttgaatg--tgttattgcgtgaa--------agttctttttttaccatggcatgaagttatgtttgtaatttgtgttcctacagAGAGATGTCGTTGCGTCTTATCTAGAATCTGGAAAACCTGTGGATGAGGAAGGCGTTGAAGATGCTTTTGAGCTGCTTCATGAGGTTAATGAGCGAGTGC
upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G095348_T03 (Zea mays), 3'ss of exon 14
gtgaggattttcgtgaacttcatcttttccttatagttgttggcttgctttgaagaacatcccaccccctccccccaacacacacacaatttctgctgaatgtatattttgtagatctttactggtagtgcccttgaaacatattgacttccat-----tattgcagCGTGATGTTGTTGTATCACATTTAGATAGTGGAAGACCTGTAGATGATGAAGGTGTTGAAGATGCTTTTGAGCTCTTACATGAAATGAATGAACGTGTCA---
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---------------------------------------------------gtaagatattgtatcgtc--------aaatgattattatct-tgtttctttttccttttacccaccttgtgatgcatggcgttataaacaaaatgactatgatatgtgctttttagAGAGATGTTGTTGCTTCTTATCTAGAAGGTGGAAAGCCTGTGGATGA---AGGTGTCGAAGATGCTTTTGAGCTGCTTCACGAGGTCAATGAGCGAGTGAGAA
upper sequence: GLYMA15G01680.1 (Glycine max), 3'ss of exon 14
lower sequence: AT1G52360.2 (Arabidopsis thaliana), 3'ss of exon 14
gtgaggattttcgtgaacttcatcttttccttatagttgttggcttgctttgaagaacatcccaccccctccccccaacacacacacaatttctgctgaatgtatattttgtagatctttactggtagtgcccttgaaacatattgacttccattattgcagCGTGATGTTGTTGTATCACATTTAGATAGTGGAAGACCTGTAGATGATGAAGGTGTTGAAGATGCTTTTGAGCTCTTACATGAAATGAATGAACGTGTCA
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-------------------------------------------------------------gtgaggatcctgtccaacaaacactcttatgctg-tgaatttctatatgcgattcatggattgtccaagtgct---aacatggtg-ttcttgttat-acagCGCGACTTAGTTACCTCACATTTTGATAGCGGAAGACCTACTGAGGAAGAAGGTGTTGAGGATGCTTTTGAGGTTCTCCATGAAAATGATGAACGTGTTAMapped 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|193431246|gb|FK396852.1|FK396852EST: ATCTAGTAACAATTGCTAGCGATACATCATTCTACATTCTGAAGTACAAT CGTGATGTTGTTGTATCACATTTAGATAGTGGAAGACCTGTAGATGATGAA
genomic: ATCTAGTAACAATTGCTAGTGATACATCATTCTACATTCTGAAGTACAATgtgaggattt ... attattgcagCGTGATGTTGTTGTATCACATTTAGATAGTGGAAGACCTGTAGATGATGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgtagatctttactggtagtgcccttgaaacatattgacttccattattgcagCGTGATGTTGTTGTATCACATTTAGATAGTGGAAGACCTGTAGATGATGAAGGTGTTGAAGATGCTTTTGAGCTCTTACATGAAATGAATGAACGTGTCA
tattgac putative branch site (score: 2)
cttccatt CT-rich tract
aaacatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaggattttcgtgaacttcatcttttccttatagttgttggcttgctttgaagaacatcccaccccctccccccaacacacacacaatttctgctgaatgtatattttgtagatctttactggtagtgcccttgaaacatattgacttccattattgcagCGTGATGTTGTTGTATCACATTTAGATAGTGGAAGACCTGTAGATGATGAAGGTGTTGAAGATGCTTTTGAGCTCTTACATGAAATGAATGAACGTGTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG