Sequence
atgc intronic sequence ATGC exonic sequenceTTGGAAAATGCTTTACATATATATGCTTGGATATGATGTGGATTTTGGTCACATGGAAGCTGTTTCTCTTATATCTGCCCCAAAGTATCCTGAAAAACAGgtattttgttctccttcatgacacctttttataatgatttgtttctctctctctctctctctctctctctctcaatatattactttattctggtgaagtatttcagtttcagttcatttacatacctagcagagaaaatatctatagactgtgaagaagtaattctaatattgccataaatgactgcag
Basic information
species | Glycine max |
transcript | GLYMA17G05410.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 2
lower sequence: LOC_Os03g02150.1 (Oryza sativa), 5'ss of exon 2
TTGGAAAATGCTTTACATATATATGCTTGGATATGATGTGGATTTTGGTCACATGGAAGCTGTTTCTCTTATATCTGCCCCAAAGTATCCTGAAAAACAGgtattttgttctccttcatgacacctttttataatgatttgtttctctctctctctctctctctctctctctcaatatattactttattctggtgaagtatttcagtttcagttcat-ttacatacctagcagagaaaatatctatagactgtgaagaagtaattctaatattgccataaatgactgcag
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ATGGAAAATGCTTTACATATATATGCTGGGTTATGATGTTGACTTTGGGCACATGGAAACTGTTTCTTTGATATCTGCTCCGAAGTATCCTGAGAAACAGgtgaaaactgcagcttta----atcct---------aattgccacatccttttccaataatggtatgcacattggtgtaaaattatgaagacggcacatgtttgtttcctaattggtactgtatcacccatgctgcag----------------------------------------------------
upper sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G137236_T01 (Zea mays), 5'ss of exon 3
TTGGAAAATGCTTTACATATATATGCTTGGATATGATGTGGATTTTGGTCACATGGAAGCTGTTTCTCTTATATCTGCCCCAAAGTATCCTGAAAAACAGgtattttgttctccttcatgacacctttttataatgatttgtttctctctctctctctctctctctctctctcaatatattactttattctggtgaagtatttcagtttcagttcattta-catacctagcagagaaaatatctatagactgtgaagaagtaattctaatattgccataaatgactgcag
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ATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGTTGATATCTGCACCAAAGTATCCTGAGAAGCAGgtataacattcagttataatatcctttgccacaggaattt--tgctcacatggtattcttaaatttgatgtagaatg-atcaaggtttcttagtggagctgtttactaaatgccagtttaacgcatgctgcag---------------------------------------------------------
upper sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 2
lower sequence: GRMZM2G700148_T01 (Zea mays), 5'ss of exon 2
TTGGAAAATGCTTTACATATATATGCTTGGATATGATGTGGATTTTGGTCACATGGAAGCTGTTTCTCTTATATCTGCCCCAAAGTATCCTGAAAAACAGgtattttgttctccttcatgacacctttttataatgatttgtttctctctctctctctctctctctctctctcaatatattactttattctggtgaagtatttcagtttcagt--tcatttacatacctagcagagaaaatatctatagactgtgaagaagtaattctaatattgccataaatgactgcag
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ATGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTTGATTTTGGGCATATGGAAACTGTCTCGTTGATATCTGCACCAAAGTATCCTGAGAAGCAGgtatggcattcagttatagtatcctttatcatatcaattt--tgctcaaatggtattcttaaatttgatgtagaata-atcaaggtttcttagtgaacctgtttactaattgctatcattttgatgcatgctgcag-------------------------------------------------------
upper sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 2
lower sequence: AT5G22780.1 (Arabidopsis thaliana), 5'ss of exon 2
TTGGAAAATGCTTTACATATATATGCTTGGATATGATGTGGATTTTGGTCACATGGAAGCTGTTTCTCTTATATCTGCCCCAAAGTATCCTGAAAAACAGgtattttgttctccttcatgacacctttttataatgatttgtttctctctctctctctctctctctctctctcaatatattactttattctggtgaagtatttcagtttcagttcatttacatacctagcagagaaaatatctatagactgtgaagaagtaattctaatattgccataaatgactgcag
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CTGGAAAATGCTTTATATACATATGCTAGGCTACGATGTGGATTTTGGCCATATGGAGGCAGTTTCTCTTATATCTGCGCCAAAGTATCCAGAAAAGCAGgtaa---------------gccaacgttttgtaaccaatgaaatattgctttctaagggtaggagaagataataggtgtgtgtgtggtgggggtggggtattt--gtttgattcaag------------------------------------------------------------------------
upper sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 2
lower sequence: AT5G22770.1 (Arabidopsis thaliana), 5'ss of exon 2
TTGGAAAATGCTTTACATATATATGCTTGGATATGATGTGGATTTTGGTCACATGGAAGCTGTTTCTCTTATATCTGCCCCAAAGTATCCTGAAAAACAGgtattttgttctccttcatgacacctttttataatgatttgtttctctctctctctctctctctctctctctcaatatattactttattctggtgaagtatttcagtttcagttcatttacatacctagcagagaaaatatctatagactgtgaagaagtaattctaatattgccataaatgactgcag
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CTGGAAAATGCTTTATATACATATGCTAGGCTACGATGTGGATTTTGGCCATATGGAGGCGGTTTCTCTTATATCTGCGCCAAAGTATCCAGAAAAGCAGgtaaaccaacgttttgtttg-----ctcaaacaaagaaatttttctttgtaaggctaggagaagat-------aatagatggaggtgtt-tgctgaaatatattctattgatc----------------------------------------------------------------------------
upper sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 2
lower sequence: Vv06s0061g01170.t01 (Vitis vinifera), 5'ss of exon 2
TTGGAAAATGCTTTACATATATATGCTTGGATATGATGTGGATTTTGGTCACATGGAAGCTGTTTCTCTTATATCTGCCCCAAAGTATCCTGAAAAACAGgtattttgttctccttcatgacacctttttataatgatttgtttctctctctctctctctctctctctctctcaatatattactttattctggtgaagtattt-cagtttcagttcatttacatacctagcagagaaaatatctatagactgtgaagaagtaattctaatattgccataaatgactgcag
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CTGGAAAATGCTTTACATTTATATGCTGGGTTATGATGTAGATTTTGGTCACATGGAAGCAGTTTCTCTAATATCTGCACCTAAGTATCCAGAAAAGCAGgtaatttacttatca-------aattttgtatttcaatttgtctgaaaatatgatattcattttttttttccaagtggtttcttgtattgtgatgtgatggaaacag-----------------------------------------------------------------------------------
upper sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S171_160V6.1 (Physcomitrella patens), 5'ss of exon 2
TTGGAAAATGCTTTACATATATATGCTTGGATATGATGTGGATTTTGGTCACATGGAAGCTGTTTCTCTTATATCTGCCCCAAAGTATCCTGAAAAACAGgtattttgttctccttcatgacacctttttataatgatttgtttctctctctctctctctctctctctctctcaatatattactttattctggtgaagtatttcagtttcagttcatttacatacctagcagagaaaatatctatagactgtgaagaagtaattctaatattgccataaatgactgcag
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CTGGAAGATACTGTACATATACATGCTTGGGTACGATGTTGATTTCGGTCACATGGAAACAATGGCACTCATTTCAGCTCCAAAATATGCAGAAAAGCAGgtatat--acgctttttaaaacattatgtgtagtcgtcttgtgttccactgt---tgtatttgtcactggtttggcagaatatacagctctgcttgactattacg------------------------------------------------------------------------------------
upper sequence: GLYMA17G05410.1 (Glycine max), 5'ss of exon 2
lower sequence: PP1S26_36V6.1 (Physcomitrella patens), 5'ss of exon 2
TTGGAAAATGCTTTACATATATATGCTTGGATATGATGTGGATTTTGGTCACATGGAAGCTGTTTCTCTTATATCTGCCCCAAAGTATCCTGAAAAACAGgtattttgttctccttcatgacacctttttataatgatttgtttctctctctctctctctctctctctctctcaatatattactttattctggtgaagtatttcagtttcagttcatttacatacctagcagagaaaatatctatagactgtgaagaagtaattctaatattgccataaatgactgcag
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TTGGAAGATGCTATACATTTACATGCTTGGCTATGATGTGGACTTCGGACACATGGAAACAGTGCAACTTATTTCAGCTCCGAAATATGCAGAAAAGCAGgtat---gtatcaaatatcgatat-tccttgcaaccgtcagtgacttgcctctgcactgttacactgggtct-aatgattggtattaatcag-------------------------------------------------------------------------------------------------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|209700087|gb|BW652959.1|BW652959EST: ACATGGAAGCTGTTTCTCTTATATCTGCCCCAAAGTATCCTGAAAAACAG GTTGGGTACATTGTAACATCAAGTTTGCTTAATGAAAATCATGACTTTCTC
genomic: ACATGGAAGCTGTTTCTCTTATATCTGCCCCAAAGTATCCTGAAAAACAGgtattttgtt ... atgactgcagGTTGGGTACATTGTAACATCAAGTTTGCTTAATGAAAATCATGACTTTCTC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TTGGAAAATGCTTTACATATATATGCTTGGATATGATGTGGATTTTGGTCACATGGAAGCTGTTTCTCTTATATCTGCCCCAAAGTATCCTGAAAAACAGgtattttgttctccttcatgacacctttttataatgatttgtttctctctctctctctctctctctctctctcaatatattactttattctggtgaagtatttcagtttcagttcatttacatacctagcagagaaaatatctatagactgtgaagaagtaattctaatattgccataaatgactgcag
- - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT