Sequence
atgc intronic sequence ATGC exonic sequenceCACGGATTCCAGGCTCAGACCAGATCAACGGGATCTAGAGAATGGGGAATACGAGAGGGCTAATTTGGAGAAACAAAGGTTGGAAAAGCGGCAGAGAATGgtatgtctgaattctgatagctttttcgtctttgctgctatgagcatgcacgaattgtcgttccccttgtatttggagtattgggggtagatgagggttt...
Basic information
species | Glycine max |
transcript | GLYMA11G03420.1 |
intron # | 11 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G03420.1 (Glycine max), 5'ss of exon 11
lower sequence: LOC_Os10g40590.1 (Oryza sativa), 5'ss of exon 9
CACGGATTCCAGGCTCAGACCAGATCAACGGGATCTAGAGAATGGGGAATACGAGAGGGCTAATTTGGAGAAACAAAGGTTGGAAAAGCGGCAGAGAATGgta--tgtctgaattctgatagctttttcgtctttgctgctatgagcatgcacgaattgtcgttccccttgtatttggagtat-tgggggtagatgagggttt
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AACGGATTCAAGACTCAGGCCAGATCAGCGGCATCTAGAGAATGGGGAGTACGAAAAGGCTAACTCTGAAAAATTGCGCCTGGAGACGAGGCAGAGGATGgtaagtattcttgttctaaaaatttccttaattttttt--tatcacagtttttaaattcttacctgcttcactgtactcgtacatcgaactacactgaattt-
upper sequence: GLYMA11G03420.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G061099_T01 (Zea mays), 5'ss of exon 9
CACGGATTCCAGGCTCAGACCAGATCAACGGGATCTAGAGAATGGGGAATACGAGAGGGCTAATTTGGAGAAACAAAGGTTGGAAAAGCGGCAGAGAATGgtatgtctgaattctg-atagct-ttttcgtctttgctgctatgagc-atg-cacgaattgtcgttccccttgtatttggagtattgggggtagatgagggttt
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GACGGATTCAAGGCTGAGACCAGATCAACGGCACCTGGAGAATGGGGAGTACGAGAAGGCCAATGCTGAAAAACTGCGCCTCGAGACACAGCAACGGATGgt-tgtacacattttacattgctatactttttttttctcatgaaagctacatcatgatcactgatcgactccatttctacattgtttgggcactgcttgca---
upper sequence: GLYMA11G03420.1 (Glycine max), 5'ss of exon 11
lower sequence: GRMZM2G409265_T03 (Zea mays), 5'ss of exon 4
CACGGATTCCAGGCTCAGACCAGATCAACGGGATCTAGAGAATGGGGAATACGAGAGGGCTAATTTGGAGAAACAAAGGTTGGAAAAGCGGCAGAGAATGgtatgtctgaattctg-atagctttttcgtctttgctgctatgagcatg--cacgaattgtcgttccccttgtat--ttggagtat-tgggggtagatgagggttt-----------------------------------------------------------------------------------------
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AACGGATTCAAGGCTGAGACCAGATCAACGTCACCTGGAGAATGGGGAGTACGAGAAGGCCAATGCTGAAAAACTGCGTCTCGAGACACGGCAGCGGATGgt-tgtacccattttgcattgctctgcttttcatgaaagttacatcatgatcactgattgactccattcttatattgtttgaatacctgcctggaccttgtggtcttggacgtacgtggtggactgaattccatcgttggatgtctgatgcttttctgccctataactgaagttttgtgtggtcgtcgtctgcag
upper sequence: GLYMA11G03420.1 (Glycine max), 5'ss of exon 11
lower sequence: AT4G22540.3 (Arabidopsis thaliana), 5'ss of exon 9
CACGGATTCCAGGCTCAGACCAGATCAACGGGATCTAGAGAATGGGGAATACGAGAGGGCTAATTTGGAGAAACAAAGGTTGGAAAAGCGGCAGAGAATGgtatgtctgaattctgatagctttttcgtctttgctgctatgagca-tgcacgaattgtcgttccccttgtatttggagtattgggggtagatgagggttt---
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CACAGACTCTAGGCTCAGACCAGATCAACGGCATCTTGAGAATGGTGAATATGAGAAGGCGAACTTAGAGAAACAACGGTTAGAAAGAAGGCAAAGAATGgtacgtc---acctatacatttcactggtccatgcatatgtaagccctgaatgaattaactttcagagaacatgaggactaatacata-gaatgagcttctgtc
upper sequence: GLYMA11G03420.1 (Glycine max), 5'ss of exon 11
lower sequence: Vv02s0154g00250.t01 (Vitis vinifera), 5'ss of exon 8
CACGGATTCCAGGCTCAGACCAGATCAACGGGATCTAGAGAATGGGGAATACGAGAGGGCTAATTTGGAGAAACAAAGGTTGGAAAAGCGGCAGAGAATGgtatgtctgaattctgatagctttttcgtctttg-ctgctatgagcatg-cacgaattgtcgttccccttgtatttggagta--ttgggggtagatgagggttt
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CACGGATTCAAGACTTAGACCAGATCAACGACATCTAGAGAATGGAGAATATGAAAAGGCAAATGCAGAAAAACTACGGTTAGAGAAGCGGCAGAGGATGgtatgagtagctcctcctttccctatttcttcaatccattttattcatggcatcattgtttgatgattttattatttaaccaaattggagattcttgtgc----Mapped 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|9259271|gb|BE347479.1|BE347479EST: ACGAGAGGGCTAATTTGGAGAAACAAAGGTTGGAAAAGCGGCAGAGAATG TCAAGGAAAATACAAGAAAGTGGTTGGAAGCCTAGGTGGTTCCGAAGAGAA
genomic: ACGAGAGGGCTAATTTGGAGAAACAAAGGTTGGAAAAGCGGCAGAGAATGgtatgtctga ... atgtctacagTCAAGGAAAATACAAGAAAGTGGTTGGAAGCCTAGGTGGTTCCGAAGAGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CACGGATTCCAGGCTCAGACCAGATCAACGGGATCTAGAGAATGGGGAATACGAGAGGGCTAATTTGGAGAAACAAAGGTTGGAAAAGCGGCAGAGAATGgtatgtctgaattctgatagctttttcgtctttgctgctatgagcatgcacgaattgtcgttccccttgtatttggagtattgggggtagatgagggttt
- - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA