Sequence
atgc intronic sequence ATGC exonic sequenceGGCATTTAAGGTGGACAATAGTGATGTCAAGCTCAATCTTGGAGTTGGGGCATACAGAACAGAAGAACTACAGCCATATGTGCTTAATGTTGTTAAGAAGgtctttgttccttactttatgtgtctgctgtgatctgagtgcccctagtttgcatagttctcctgtcttatgtttgctcctaattttgcttcatgatcacaaacttaagactacttttggattgagttaatgctgatttagatgaaattcttatttttcttag
Basic information
species | Glycine max |
transcript | GLYMA14G13480.1 |
intron # | 3 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G13480.2 (Glycine max), 5'ss of exon 3
lower sequence: LOC_Os02g55420.1 (Oryza sativa), 5'ss of exon 3
GGCATTTAAGGTGGACAATAGTGATGTCAAGCTCAATCTTGGAGTTGGGGCATACAGAACAGAAGAACTACAGCCATATGTGCTTAATGTTGTTAAGAAGgtctttgttccttactttatgtgtctgctgtgatctgagtgcccctagtttgcatagttctcctgtcttatgtttgctcctaattttgcttcatgatcacaaacttaagactacttttggattgagttaatgctgatttagatgaaattcttatttttcttag
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AGCATTTAAGGCAGATCAAAATGATCTGAAGCTCAACCTTGGTGTTGGTGCCTATAGAACAGAAGAGTTACAGCCTTATGTCCTCAATGTGGTCAAGAAGgtaa--gtctaataatacctatcatttccttaatataa-----ctcagttc---ttgttgtgacacactattcttacacgtggtag-----------------------------------------------------------------------------
upper sequence: GLYMA14G13480.2 (Glycine max), 5'ss of exon 3
lower sequence: GRMZM5G836910_T01 (Zea mays), 5'ss of exon 3
GGCATTTAAGGTGGACAATAGTGATGTCAAGCTCAATCTTGGAGTTGGGGCATACAGAACAGAAGAACTACAGCCATATGTGCTTAATGTTGTTAAGAAGgtctttgttccttactttatgtgtctgctgtgatctgagtgcccctagtttgcatagttctcctgtcttatgtttgctcctaattttgcttcatgatcacaaacttaagactacttttggattgagttaatgctgatttagatgaaattcttatttttcttag
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GGCCTTTAAAGCAGATAAAAGCGAGCTGAAGCTCAATCTTGGTGTTGGTGCCTATAGGACAGAAGAGCTGCAGCCCTACGTGCTCAATGTAGTCAAGAAGgt----gagcctaatcggaagcagaattta----cttaataatccaggttcct---gttttcatgttctct-tttgcatgttatatag---------------------------------------------------------------------------
upper sequence: GLYMA14G13480.2 (Glycine max), 5'ss of exon 3
lower sequence: AT4G31990.4 (Arabidopsis thaliana), 5'ss of exon 4
GGCATTTAAGGTGGACAATAGTGATGTCAAGCTCAATCTTGGAGTTGGGGCATACAGAACAGAAGAACTACAGCCATATGTGCTTAATGTTGTTAAGAAGgtctttgttccttactttatgtgtctgctgtgatctgagtgcccctagtttgcatagttctcctgtcttatgtttgctcctaattttgcttcatgatcacaaacttaagactacttttggattgagttaatgctgatttagatgaaattcttatttttcttag
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AGCATTCAAAGCTGACACTAACGGGATGAAACTCAATCTTGGTGTTGGTGCTTATCGTACTGAGGAACTCCAGCCTTATGTGCTTAATGTTGTTAAAAAGgttggaacttgtaactcta-------gttaatctcgtatggctctt--ttcatgtagttaatttcattacttgtcgtttctag--------------------------------------------------------------------------------
upper sequence: GLYMA14G13480.2 (Glycine max), 5'ss of exon 3
lower sequence: Vv04s0008g06040.t01 (Vitis vinifera), 5'ss of exon 5
GGCATTTAAGGTGGACAATAGTGATGTCAAGCTCAATCTTGGAGTTGGGGCATACAGAACAGAAGAACTACAGCCATATGTGCTTAATGTTGTTAAGAAGgtctttgttccttactttatgtgtctgctgtgatctgagtgcccctagtttgcatagttctcctgtcttatgtttgctcctaattttgcttcatgatcacaaacttaagactacttttggattgagttaatgctgatttagatgaaattc--ttatttttcttag
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GGCTTTCAGAGCAGACAATAGTGAGATGAAGCTCAACCTTGGAGTCGGGGCCTACCGAACAGAAGAACTCCAACCTTATGTGCTTAATGTTGTCAAGAAGgtcagttttcttt--tttagaacttaatcatcactaactgatccataaataggattatttt------ttaagcct--------------tttatgaatataatcttaa---tgcttttacttctacttcttcctgatataatagatcgttggtttcattttctagMapped 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|151403769|gb|EV273579.1|EV273579EST: CATACAGAACAGAAGAACTACAGCCATATGTGCTTAATGTTGTTAAGAAG GCAGAGAATTTTATGCTGGAGAGAGGGGATAACAAAGAG
genomic: CATACAGAACAGAAGAACTACAGCCATATGTGCTTAATGTTGTTAAGAAGgtctttgttc ... tttttcttagGCAGAGAATCTTATGCTGGAGAGAGGGGATAACAAAGAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGCATTTAAGGTGGACAATAGTGATGTCAAGCTCAATCTTGGAGTTGGGGCATACAGAACAGAAGAACTACAGCCATATGTGCTTAATGTTGTTAAGAAGgtctttgttccttactttatgtgtctgctgtgatctgagtgcccctagtttgcatagttctcctgtcttatgtttgctcctaattttgcttcatgatcacaaacttaagactacttttggattgagttaatgctgatttagatgaaattcttatttttcttag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG