Sequence
atgc intronic sequence ATGC exonic sequenceGCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCCAAGCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGCGAGgtaatctatactggattagaagtttttttcattttctgttattttctgtcacctagtgagataaggcttttgttgtttgttttatttttcacacaagtga...
Basic information
species | Glycine max |
transcript | GLYMA15G13380.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G13380.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os12g41170.1 (Oryza sativa), 5'ss of exon 3
GCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCCAAGCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGCGAGgtaatctatactggattagaagtttttttcattttctgttattttctgtcacctagtgagataaggcttttgttgtttgttttatttttcacacaagtga----
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TCAAACTACCAAAGGTATCTGGATAGCACGATGTGTTGGTGTTGAGCCGTGTACTGTTGTGATGGATTTGGAGGGTACTGATGGAAGAGAAAGAGGAGAGgtatgct-tgcttaacgcgtatacaattcaattcccatgttcaatatatcttctagtgaacct---tttggagtggccgtgtgcacttgtagaaagctgttctg
upper sequence: GLYMA15G13380.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G390374_T01 (Zea mays), 5'ss of exon 3
GCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCCAAGCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGCGAGgtaat-ctatactggattagaagtttttttcattttctgttattttctgtcacctagtgagataaggcttttgttgtttgttttatttttcacacaagtga----
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CCAAACTACTAAAGGTATCTGGATAGCACGTTGTGTTGGTGTTGAACCTTGTACTGTTGTATTGGATCTGGAGGGTACTGATGGAAGAGAGAGAGGAGAGgtaagactatg-tacacaggtcaattataatgtttagtatgagttagcg--aactcttcaagtagtg--tgcaatgctagaatgcttctggaagtcaatgtggtt
upper sequence: GLYMA15G13380.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM2G052619_T01 (Zea mays), 5'ss of exon 3
GCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCCAAGCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGCGAGgtaa---tctatactggattagaagtttttttcattttctgttattttctgtcacctagtgagataaggcttttgttgtttgttttatttttcacacaagtga
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TCAAACTACTAAAGGTATCTGGATAGCACGCTGTGTTGGTGTTGAGCCTTGTACTGTTGTATTGGATCTTGAGGGTACCGATGGAAGAGAGAGAGGAGAGgtaacgctctgtac-acactacacaggtcaattataatgtat-agtgtgaattagcaaacccttcaagtggtagtgtgcatggtagaatttttctgaagttc-
upper sequence: GLYMA15G13380.2 (Glycine max), 5'ss of exon 3
lower sequence: AT5G45160.1 (Arabidopsis thaliana), 5'ss of exon 4
GCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCCAAGCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGCGAGgtaatctatactggattagaagtttttttcattttctgttattttctgtcacctagtgagataaggcttttgttgtttgtttt---atttttcacacaagtga--------
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TCAAACAACTAAAGGTATTTGGATGGCTAGGTGTGTTGGTATTGAGCCTTTCACAATTGCTATGGATTTGGAGGGTACTGATGGGAGAGAAAGAGGCGAGgtaagatg-actgaatcacacg--------gttagctatatttagttgtaacccaacaatat--gtttttggctaactagctatgaaattttcagaaaaatttgaatattt
upper sequence: GLYMA15G13380.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv10s0116g00810.t01 (Vitis vinifera), 5'ss of exon 2
GCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCCAAGCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGCGAGgtaat-----ctatactggattagaagtttttttcattttctgttattttctgtcacctagtgagataaggcttttgttgtttgttttatttttcacacaagtga
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TCAAACAACTAAGGGAATTTGGATGGCAAATTGTGTTGGTATTGAGCCTTTAACAATTGCCATGGATTTAGAGGGCACTGATGGGAGGGAAAGAGGCGAGgtaatgagctttacatgatatttcaaggaataatgaaatt--gtagcttaattttaccaagaaaaaggtggttaatttggtatattatagattgtgttgctc---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|11689067|gb|BF596743.1|BF596743EST: GCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGCGAG GATGACACTGCTTTCGAGAAACAGAGTGCTCTTTTTGCTTTGGCAATATCA
genomic: GCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGCGAGgtaatctata ... taactctcagGATGACACTGCTTTCGAGAAACAGAGTGCTCTTTTTGCTTTGGCAATATCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCAAACGACCAAGGGCATTTGGATAGCCAAGTGTGTTGGGATTGAGCCAAGCACAATTGCTATGGATTTAGAGGGTACTGATGGAAGAGAGAGAGGCGAGgtaatctatactggattagaagtttttttcattttctgttattttctgtcacctagtgagataaggcttttgttgtttgttttatttttcacacaagtga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG