Sequence
atgc intronic sequence ATGC exonic sequenceGCAGCAGATTTCAATGTTGCAGCAGCTCAACAAGGAATAATTTACATTGATGAAGTTGACAAAATAACTAAGAAGgtttcttttccaatctaattggataagtacatgctttcttatcgactatagattttaatgttattgttacataataacag
Basic information
species | Glycine max |
transcript | GLYMA09G28260.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G28260.1 (Glycine max), 5'ss of exon 7
lower sequence: AT1G33360.1 (Arabidopsis thaliana), 5'ss of exon 6
GCAGCAGATTTCAATGTTGCAGCAGCTCAACAAGGAATAATTTACATTGATGAAGTTGACAAAATAACTAAGAAGgtttcttttccaatc-taattggataagtacatgctttcttatcgactatagattttaatg-ttattg---ttacataataacag
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GTCGCTGAGTTCAACGTGCAAGCAGCACAACAGGGAATAGTCTATATTGATGAAGTTGATAAGATAACTAAGAAGgtcagtatgcaagacatgataacttctgaactcgataagaagaagataattgggctttatgcttcctggattctcctttctacag
upper sequence: GLYMA09G28260.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv18s0089g01240.t01 (Vitis vinifera), 5'ss of exon 6
GCAGCAGATTTCAATGTTGCAGCAGCTCAACAAGGAATAATTTACATTGATGAAGTTGACAAAATAACTAAGAAGgtttc----ttttccaatctaattggataagtacatgctttcttatcgac---tatagattttaatgt-tattgttacataataacag-------
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GTTGCTGAGTTCAATGTACAAGCAGCTCAACAAGGGATGGTCTATATCGATGAAGTTGACAAGATAACTAAAAAGgttccacagttttccagcttatttatttatttttatttaaatttaggtgtctttgtaaaaccaaaagtgcacttaaatgtggaaaccttttgcag
upper sequence: GLYMA09G28260.1 (Glycine max), 5'ss of exon 7
lower sequence: PP1S163_100V6.1 (Physcomitrella patens), 5'ss of exon 6
GCAGCAGATTTCAATGTTGCAGCAGCTCAACAAGGAATAATTTACATTGATGAAGTTGACAAAATAACTAAGAAGgttt--cttttccaatctaattggataagtacatgctttcttatcgactatagattttaatgttat-tgttacataataacag------------------
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GCGGCAGAATTTAATGTTCCAGCCGCTCAACAGGGTATCGTTTATATTGATGAAGTTGACAAAATTACAAAGAAGgtatgacattttcatttgaattgagacgtcacctcaagtcagagaaa-tatacacctccaagttctgtattagttagtaccttcagcatagttttctagta
upper sequence: GLYMA09G28260.1 (Glycine max), 5'ss of exon 7
lower sequence: PP1S98_222V6.1 (Physcomitrella patens), 5'ss of exon 7
GCAGCAGATTTCAATGTTGCAGCAGCTCAACAAGGAATAATTTACATTGATGAAGTTGACAAAATAACTAAGAAGgt-ttcttttccaatctaattggataagtacatgctttcttatcgacta-tagattttaatg-ttattgttacata--ataacag-----------------
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GAAGCAGAATTTAACGTACTTGCTGCCCAGCAAGGCATCATTTACATTGATGAAGTGGACAAAATCACAAAGAAGgtattctttttttatccta--gtacgaatttctggctagttcttgattggtagagtagatcaattgtttttagatagcacaacagtgggcaggactcggatg
upper sequence: GLYMA09G28260.1 (Glycine max), 5'ss of exon 7
lower sequence: PP1S171_84V6.1 (Physcomitrella patens), 5'ss of exon 6
GCAGCAGATTTCAATGTTGCAGCAGCTCAACAAGGAATAATTTACATTGATGAAGTTGACAAAATAACTAAGAAGgtttcttttccaatctaattggataagta-catgctttcttatcgactatagattttaatgttattgttacataataacag---------------------
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GCAGCTGAATTCAATGTTCCAGCTGCTCAGCAGGGTATCGTGTACATTGATGAAGTGGACAAAATTACTAAAAAGgtatgcttg--attcccgcagaatgaacggcatatcgtctcttagttgatggattttctctttggtaacatagaattgtaggacaggatttatgtgtctcctMapped 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|16278445|gb|BI942908.1|BI942908EST: CTCAACAAGGAATAATTTACATTGATGAAGTCGACAAAATAACTAAGAAG GCCGAGAGCTTAAATATCAGTCGGGATGTATCTGGTGAGGGTGTTCAGCAG
genomic: CTCAACAAGGAATAATTTACATTGATGAAGTTGACAAAATAACTAAGAAGgtttcttttc ... ataataacagGCCGAGAGCTTAAATATCAGTCGGGATGTTTCTGGTGAGGGTGTTCAGCAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAGCAGATTTCAATGTTGCAGCAGCTCAACAAGGAATAATTTACATTGATGAAGTTGACAAAATAACTAAGAAGgtttcttttccaatctaattggataagtacatgctttcttatcgactatagattttaatgttattgttacataataacag
- - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG