Sequence
atgc intronic sequence ATGC exonic sequenceGATCAAAAGTTCAGGCTAAAGCTCGCATGGAAAGCTTTTCAACATGTTGCTTCCTATGATTCTGCAGTATCTGAGTGGTTGTGGAAGCAGAGTGTGGGAGgtacttttgtttctagttagtgaggattattaatttactctcaatgtgagatggaaatgtcaattacttgaaaatgcaaataatttatgaatataatcct...
Basic information
species | Glycine max |
transcript | GLYMA04G16670.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G16670.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os08g10570.1 (Oryza sativa), 5'ss of exon 7
GATCAAAAGTTCAGGCTAAAGCTCGCATGGAAAGCTTTTCAACATGTTGCTTCCTATGATTCTGCAGTATCTGAGTGGTTGTGGAAGCAGAGTGTGGGAGgtacttttgtttctagttagtgaggattattaatttactctcaatgtgagatggaaatgtcaat-tacttgaaaatgcaaataatttatgaatataatcct----
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GACCAGCAATTCCGCAAGATGCTAGCATGGAAAGCTTTCCAACATGTCGCTTCTTATGATTCAGCTGTCTCAGAATGGTTGTGGAAGCAATCGAACAAAGgtattaacactaactttttgtaatgatc--tagttta-------tatatgatggttttgtcaacatttcctcagatatcattacactatca-tgttctcatgtag
upper sequence: GLYMA04G16670.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G368902_T01 (Zea mays), 5'ss of exon 7
GATCAAAAGTTCAGGCTAAAGCTCGCATGGAAAGCTTTTCAACATGTTGCTTCCTATGATTCTGCAGTATCTGAGTGGTTGTGGAAGCAGAGTGTGGGAGgtacttttgtttctagttagtgaggattattaatttactctcaatgtgagatggaaatgtcaattacttgaaaatgcaaataatttatgaatataatcct
|| | | ||| | | || ||||||||||| || |||||||||||||||||||||||||| | || ||||||||||||||||| | |||| | | ||| | | || | | || || ||| || | | | ||||| | | ||| | ||| |
GACCCTGATTTCCGCAGGACACTTGCATGGAAAGCATTCCAACATGTTGCTTCCTATGATTCTGCTATCTCGGAGTGGTTGTGGAAGCAATCTAATAAAGgtgttgtcattttt--ctggtaaatgtgat--gcttgtct--aat---agttttatcagccaatt-ttcatagatgttt-cgtctcatgcag--------
upper sequence: GLYMA04G16670.1 (Glycine max), 5'ss of exon 7
lower sequence: GRMZM2G306374_T01 (Zea mays), 5'ss of exon 7
GATCAAAAGTTCAGGCTAAAGCTCGCATGGAAAGCTTTTCAACATGTTGCTTCCTATGATTCTGCAGTATCTGAGTGGTTGTGGAAGCAG---AGTGTGGGAGgtacttttgtttctagttagtgaggattattaatttactctcaatgtga--gatgga---aatgtcaattacttgaaaatgcaaataatttatgaatataatcct
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GATCAGCAGTTCCCCAGGATGTTGGCATGGAAAGCCATGCAGCATGTCGCCTCTTATGATTCTGCAGTGTCAGAATGGTTGTGGAAGCAATCAAATAAAGgtagtgtttcagcaacagactgaatagttgaattcatt-attgtaaataggactattggatttagtggcagccttcggaaaacggtgatagcgtcgctata-------
upper sequence: GLYMA04G16670.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv01s0011g01460.t01 (Vitis vinifera), 5'ss of exon 7
GATCAAAAGTTCAGGCTAAAGCTCGCATGGAAAGCTTTTCAACATGTTGCTTCCTATGATTCTGCAGTATCTGAGTGGTTGTGGAAGCAGAGTGTGGGAGgtacttttgt-ttcta---gttagtgaggattattaatttactctcaatgtgagatggaaatgtcaattacttgaaaatgcaaataatttatgaatataatcct
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GACCAACTGTTCCGAAGAAAGCTTGCTTGGAAGGCTTTCCAACATGTTGCTTCTTATGATTCTGCAGTTTCAGAGTGGCTGTGGAAGCAGACTGTAGGAGgtacttctttgctccatatatttctagctattttcaataaggtttttgtaaaccatgtgggaattgaataaccca---tttttgtttcttggtaacatttttt-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|298176310|gb|HO023011.1|HO023011EST: TTCCTATGATTCTGCAGTATCTGAGTGGTTGTGGAAGCAGAGTGTGGGAG ATAAATTCCCACCTAGCTTGACAGTGCCTCTTTCACTCAAAAGTTCTCTCC
genomic: TTCCTATGATTCTGCAGTATCTGAGTGGTTGTGGAAGCAGAGTGTGGGAGgtacttttgt ... ttggtaacagATAAATTCCCACCTAGCTTGACAGTGCCTCTTTCACTCAAAAGTTCTCTCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GATCAAAAGTTCAGGCTAAAGCTCGCATGGAAAGCTTTTCAACATGTTGCTTCCTATGATTCTGCAGTATCTGAGTGGTTGTGGAAGCAGAGTGTGGGAGgtacttttgtttctagttagtgaggattattaatttactctcaatgtgagatggaaatgtcaattacttgaaaatgcaaataatttatgaatataatcct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG