Sequence
atgc intronic sequence ATGC exonic sequenceGGAAGACATTACTTGCTAAAACACTAGCTCGATTTGTGAATGTGCCGTTTGTCATTGCTGATGCAACAACCTTAACACAGgcaagtatgaattcattgatgaggtaatgttagaatttggaaaacaaagagtacagcataaaaaagttaaatgatgcagatttgtccatttttccattgc...
Basic information
species | Glycine max |
transcript | GLYMA09G28260.1 |
intron # | 5 |
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 5
lower sequence: LOC_Os02g35630.1 (Oryza sativa), 5'ss of exon 4
GGAAGACATTACTTGCTAAAACACTAGCTCGATTTGTGAATGTGCCGTTTGTCATTGCTGATGCAACAACCTTAACACAGgcaagtatgaattcattgatgag---gtaatgttagaatttggaaaacaaagagtacagcataaaaaagttaaatgatgca--gatttgtccatttttccattgc
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GTAAAACTCTACTTGCTAAGACATTAGCTCGCTTTGTGAATGTGCCATTTGTAATTGCTGATGCAACAACATTGACACAGgcaagtctttactaacttttaaatgcataatgtccaagcacacatctttatgatttgagctcattacttgcaaaagttaaaatggtgaagccattaaact-----
upper sequence: GLYMA09G28260.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G050186_T03 (Zea mays), 5'ss of exon 3
--------------------GGAAGACATTACTTGCTAAAACACTAGCTCGATTTGTGAATGTGCCGTTTGTCATTGCTGATGCAACAACCTTAACACAGgcaagtatgaattcattgatgaggtaatgttagaatttggaaaacaaagagtacagcataaa-aaagttaaatgatgcagatt-tgtccatttttccattgc
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ACGGTTCATTTCTTTCACAGGTAAAACTTTACTTGCAAAGACATTAGCTCGTTTTGTGAATGTACCATTTGTAATTGCTGATGCAACAACATTGACCCAGgcaagtatttactaac-attgccctctagagagaagtgcatattggttaagcacacaacaaacatcattgtatagggagtattgcaggcattcatcaatga-
upper sequence: GLYMA09G28260.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G050186_T05 (Zea mays), 5'ss of exon 4
GGAAGACATTACTTGCTAAAACACTAGCTCGATTTGTGAATGTGCCGTTTGTCATTGCTGATGCAACAACCTTAACACAGgcaagtatgaattcattgatgaggtaatgttagaatttggaaaacaaagagtacagcataaaaaa-gttaaatgatgcagatt-tgtccatttttccattgc
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GTAAAACTTTACTTGCAAAGACATTAGCTCGTTTTGTGAATGTACCATTTGTAATTGCTGATGCAACAACATTGACCCAGgcaagtatttactaac-attgccctctagagagaagtgcatattggttaagcacacaacaaacatcattgtatagggagtattgcaggcattcatcaatga-
upper sequence: GLYMA09G28260.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G101791_T02 (Zea mays), 5'ss of exon 4
GGAAGACATTACTTGCTAAAACACTAGCTCGATTTGTGAATGTGCCGTTTGTCATTGCTGATGCAACAACCTTAACACAGgcaagtatgaattcattgatgaggtaatgttagaatttggaaaacaaagagtaca-gcataaaaaa-gttaaatgatgcagatttgtcca---tttttccattgc
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GTAAAACTTTACTTGCAAAGACATTAGCTCGTTTTGTGAATGTACCATTTGTAATTGCTGATGCAACGACATTAACCCAGgcaagtat----ttgttaacattgcctt-ctagagagaagtgcatattggttaaacacacaaaaaacgccaatctatagagagtattgcaggcatcatcaatgac
upper sequence: GLYMA09G28260.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv18s0089g01240.t01 (Vitis vinifera), 5'ss of exon 4
GGAAGACATTACTTGCTAAAACACTAGCTCGATTTGTGAATGTGCCGTTTGTCATTGCTGATGCAACAACCTTAACACAGgcaagtatgaattcattgatgaggtaatgttagaatttggaaaacaaagagtacagcataaaaaagttaaatgatgcagatttgtccatttttccattgc--
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GAAAAACATTACTTGCAAAAACACTTGCTCGTTTTGTGAATGTGCCCTTTGTCATTGCTGATGCAACAACCCTTACACAGgtgagtgttactttatttttcacttattattgaaatt--gtacaaaatttatatatttttaatatctgtttgcatgccaatttttgtatattaacttttaacMapped 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: GATTTGTGAATGTGCCGTTTGTCATTGCTGATGCAACAACCTTAACACAG GCTGGTTATGTTGGACAAGATGTCGAATCAATACTGTATAAACTACTTGTG
genomic: GATTTGTGAATGTGCCGTTTGTCATTGCTGATGCAACAACCTTAACACAGgcaagtatga ... tactttgcagGCTGGTTATGTTGGAGAAGATGTCGAATCAATACTGTATAAACTACTTGTG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGAAGACATTACTTGCTAAAACACTAGCTCGATTTGTGAATGTGCCGTTTGTCATTGCTGATGCAACAACCTTAACACAGgcaagtatgaattcattgatgaggtaatgttagaatttggaaaacaaagagtacagcataaaaaagttaaatgatgcagatttgtccatttttccattgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ataaaaaa