Sequence
atgc intronic sequence ATGC exonic sequenceCTAAGCCTAGTTCTCTGAGAAGGCAACAATTGATCAGAGAGTGCCCCATTCTCTCCAACATCGAGCCTAAGCAAATCAAGGTTTGGTTCCAGAACCGCAGgtgagtcactcaaatcaacactactttaaggcccctcgttctttcatgtttctgaaagtggttcttagatgtggggttttgggtggtgtgtag
Basic information
species | Glycine max |
transcript | GLYMA12G08080.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os10g33960.2 (Oryza sativa), 5'ss of exon 1
CTAAGCCTAGTTCTCTGAGAAGGCAACAATTGATCAGAGAGTGCCCCATTCTCTCCAACATCGAGCCTAAGCAAATCAAGGTTTGGTTCCAGAACCGCAGgtgagtc-actcaaatcaacac-tactttaaggcccctcgttctttcatgtttctgaaagtggttcttagatgtggggttttgggtggtgtgtag-----
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CCAAGCCCAGCTCCTCCCGCCGCCAGCAGCTGCTCCGCGACTGTCCCATCCTCGCCAACATCGAGCCCAAGCAGATCAAGGTCTGGTTCCAGAACAGAAGgtgagcctaatcatgcacacatatactatcatactagtttgccctttttttttgtgtgtctggatgtgaaatgttatgatcttatggataaattggttga
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 1
lower sequence: LOC_Os03g01890.1 (Oryza sativa), 5'ss of exon 2
CTAAGCCTAGTTCTCTGAGAAGGCAACAATTGATCAGAGAGTGCCCCATTCTCTCCAACATCGAGCCTAAGCAAATCAAGGTTTGGTTCCAGAACCGCAGgtga-gtcactcaaatcaacactactttaaggcccctcgttctttcatg--tttctgaaagtggttcttagatgtggggttttgggtggtgtgtag-----
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CCAAGCCAACCTCCTCCCGCAGGCAGCAACTGCTGCGTGAGTGCCCCATACTTGCTAACATTGAGCCCAAGCAGATCAAGGTCTGGTTCCAGAACAGAAGgtaatgataatagaattgaatct-ttctacgtttgttctctgtgacaaaaacttgttatggcagttttccctgattgtttcatctgtcacctgaaataaca
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G042250_T03 (Zea mays), 5'ss of exon 2
CTAAGCCTAGTTCTCTGAGAAGGCAACAATTGATCAGAGAGTGCCCCATTCTCTCCAACATCGAGCCTAAGCAAATCAAGGTTTGGTTCCAGAACCGCAGgtgagtcactcaaatcaacactactttaaggcccctcgttctttcatgtttctgaaagtggttcttagatgtggggttttgg-gtggtgtgtag
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CCAAGCCAAGCTCCTCACGGCGCCAGCAACTGCTGCGCGAGTGTCCTATACTCTCCAACATTGAGCCGAAGCAGATCAAGGTCTGGTTCCAGAACCGAAGgtaa----ctaaatctgaca--agtcacagcctactagctcagctctagtgg-aaaaatgtgtctcacgttttgatccctgttgtag-------
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G109987_T01 (Zea mays), 5'ss of exon 2
CTAAGCCTAGTTCTCTGAGAAGGCAACAATTGATCAGAGAGTGCCCCATTCTCTCCAACATCGAGCCTAAGCAAATCAAGGTTTGGTTCCAGAACCGCAGgtga---gtcactcaaatcaacactactttaaggcc---cctcgttctttcatgtttctgaaagtggttc----ttagatgtggggttttgggtggtgtgtag
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CCAAGCCAAGCTCCTCACGGCGGCAGCAACTGCTGCGCGAGTGTCCTATACTCTCCAACATTGAGCCAAAGCAGATCAAGGTCTGGTTCCAGAACCGGAGgtaacaaatccgacaagtcgaagtcgaagtcgagccacagcccactaaattgtagtgaagaacgtatttcacgtctggattaatgtgcctgtaccttctgtag
upper sequence: GLYMA12G08080.1 (Glycine max), 5'ss of exon 1
lower sequence: GRMZM2G469551_T02 (Zea mays), 5'ss of exon 2
CTAAGCCTAGTTCTCTGAGAAGGCAACAATTGATCAGAGAGTGCCCCATTCTCTCCAACATCGAGCCTAAGCAAATCAAGGTTTGGTTCCAGAACCGCAGgtgagt-cactcaaatcaac--actactttaaggcccctcgttctt----tcatgtttctgaaagtggttcttagatgtggggttttgggtggtgtg-tag
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CCAAGCCCAGCTCCGCGCGCAGGCAGCAGCTGCTACGCGAGTGCCCCATCCTCTCAAACATCGAGGCCAAGCAGATTAAAGTCTGGTTCCAGAACCGGAGgtgagcgctgacaaattagtcagcaaatctgttggagcttatcctcgaggaagtgaatctcgatgaatccttttgtttctacatcgtaa-tgatgtgattgMapped 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|207753259|gb|GD725069.1|GD725069EST: CTCTCCAACATCGAGCCTAAGCAAATCAAGGTTTGGTTCCAGAACCGCAG GTGTAGGGAGAAG
genomic: CTCTCCAACATCGAGCCTAAGCAAATCAAGGTTTGGTTCCAGAACCGCAGgtgagtcact ... tggtgtgtagGTGTAGGGAGAAG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CTAAGCCTAGTTCTCTGAGAAGGCAACAATTGATCAGAGAGTGCCCCATTCTCTCCAACATCGAGCCTAAGCAAATCAAGGTTTGGTTCCAGAACCGCAGgtgagtcactcaaatcaacactactttaaggcccctcgttctttcatgtttctgaaagtggttcttagatgtggggttttgggtggtgtgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA