Sequence
atgc intronic sequence ATGC exonic sequenceAGAGATAATCAACTTGTGTCGTAGCATGGGAAAGGCTGTTATTGTGGCAACAAATATGCTAGAAAGCATGATTGTTCACCCAACTCCAACCAGAGCAGAGgtatcagatatagcaattgcagttcgtgaaggttctgatggaataatgttgtctggagaaacagctcatggaaagtaagtaaatagttttcctgcgccta...
Basic information
species | Glycine max |
transcript | GLYMA16G28980.2 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G28980.2 (Glycine max), 5'ss of exon 8
lower sequence: LOC_Os01g47080.1 (Oryza sativa), 5'ss of exon 8
AGAGATAATCAACTTGTGTCGTAGCATGGGAAAGGCTGTTATTGTGGCAACAAATATGCTAGAAAGCATGATTGTTCACCCAACTCCAACCAGAGCAGAGgtatcagatatagcaattgcagttcgtgaaggttctgatggaataatgttgtctggagaaacagctcatggaaagtaagtaa-atagttttcctgcgccta-------------------------------------------------------------------------
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--------------------------------------------------------------------------TTCATCCAACTCCAACCCGAGCAGAAGTTTCAGACATTGCTATAGCTGTTCGAGAAGGTTCTGATGGCATTATGCTTTCTGGGGAAACTGCACACGGAAAgtatgtgatatccttttcttatgcatagatgatcactcacatgatcaaaatttaataactaaagtaggctgattttttttattttttattcagtcatact
upper sequence: GLYMA16G28980.2 (Glycine max), 5'ss of exon 8
lower sequence: AT5G52920.1 (Arabidopsis thaliana), 5'ss of exon 8
AGAGATAATCAACTTGTGTCGTAGCATGGGAAAGGCTGTTATTGTGGCAACAAATATGCTAGAAAGCATGATTGTTCACCCAACTCCAACCAGAGCAGAGgtatcagatatagcaattgcagttcgtgaaggttctgatggaataatgttgtctggagaaacagctcatggaaagtaagtaaatagttttcctgcgccta------------------------------------------------------------------------
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--------------------------------------------------------------------------TTCATCCAACTCCAACCCGGGCAGAGGTCTCAGACATTGCTATCGCTGTTAGAGAAGGTGCTGATGCGGTAATGCTTTCAGGAGAAACTGCTCACGGAAAgtaagtgg-cagtatcttttcatgtactctattgatttagcttataatggcattgaatgtttattatatgcatgaatctcaactttacttgatatcag
upper sequence: GLYMA16G28980.2 (Glycine max), 5'ss of exon 8
lower sequence: Vv16s0050g02180.t01 (Vitis vinifera), 5'ss of exon 8
AGAGATAATCAACTTGTGTCGTAGCATGGGAAAGGCTGTTATTGTGGCAACAAATATGCTAGAAAGCATGATTGTTCACCCAACTCCAACCAGAGCAGAGgtatcagatatagcaattgcagttcgtgaaggttctgatggaataatgttgtctggagaaacagctcatggaaagtaagtaaatagttttcctgcgccta--------------------------------------------------------------------------
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--------------------------------------------------------------------------TTCACCCAACACCAACCCGAGCAGAGGTATCAGACATTGCCATTGCTGTCCGAGAGGGTGCTGATGCAGTTATGCTTTCTGGAGAAACTGCTCATGGAAAgtaagctctttctcttggagtttctagttccttaagatgtagctggagataatgggagcaccttggttcatattgggaaaaaaatgtttggcacttgagg
upper sequence: GLYMA16G28980.2 (Glycine max), 5'ss of exon 8
lower sequence: PP1S205_25V6.1 (Physcomitrella patens), 5'ss of exon 7
AGAGATAATCAACTTGTGTCGTAGCATGGGAAAGGCTGTTATTGTGGCAACAAATATGCTAGAAAGCATGATTGTTCACCCAACTCCAACCAGAGCAGAGgtatcagatatagcaattgcagttcgtgaaggttctgatggaataatgttgtctggagaaacagctcatggaaagtaagtaaatagttttcctgcgccta--------------------------------------------------------------------------
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--------------------------------------------------------------------------CTCACCCCACTCCCACACGAGCAGAGGTTTCAGACATAGCTATTGCCGTCCGTGAAGGTGCGGACGCAGTTATGCTTTCTGGTGAAACCGCTCACGGAAAgtaagtacctttggaatttgttgatagtcttctttaatatcatctaagctcatagcccagtaactgccaaaattttggggcatcaggcttatcgtcagtgMapped 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|23734545|gb|BU765511.1|BU765511EST: CAAATATGCTAGAAAGCATGATTGTTCACCCAACTCCAACCAGAGCAGAG GCTGGCTTTGTATCAAGGAGTCTGTCCCATATACATGGAATTCTGTGATGA
genomic: CAAATATGCTAGAAAGCATGATTGTTCACCCAACTCCAACCAGAGCAGAGgtatcagata ... tacaacagagGCTGGCTTTGTATCAAGGAGTCTGTCCCATATACATGGAATTCTGTGATGA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGAGATAATCAACTTGTGTCGTAGCATGGGAAAGGCTGTTATTGTGGCAACAAATATGCTAGAAAGCATGATTGTTCACCCAACTCCAACCAGAGCAGAGgtatcagatatagcaattgcagttcgtgaaggttctgatggaataatgttgtctggagaaacagctcatggaaagtaagtaaatagttttcctgcgccta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG