Sequence
atgc intronic sequence ATGC exonic sequenceGTGCAAAAGAGGAGAATATATGACATAACTAATGTTTTGGAAGGCATTGGTCTCATTGAAAAGAAGCTCAAGAACAGAATACATTGGAAgtactgtgacacatttttaatttttcttttgtgtatgtttcttgaagtttagatatatgtagtattagagcaaaattcttacatcaaaccttgtggaatatag
Basic information
species | Glycine max |
transcript | GLYMA10G09410.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G09410.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os12g06200.1 (Oryza sativa), 5'ss of exon 5
GTGCAAAAGAGGAGAATATATGACATAACTAATGTTTTGGAAGGCATTGGTCTCATTGAAAAGAAGCTCAAGAACAGAATACATTGGAAgtactgtgacacatttttaatttttcttttgtgtatgtttcttgaagtttagatatatgtagtattagagcaaaattcttacatcaaaccttgtggaatatag
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GTACAAAAAAGGCGTATATATGACATCACTAATGTCCTTGAAGGGATAGGGCTGATAGAAAAGAAGCTCAAGAACAATATCCGTTGGAAgta-----atatattctc---tttatatccatatctgtaaattgcattttatgggtatcacatgctt---tatgtctcctttttcag----------------
upper sequence: GLYMA10G09410.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os04g33950.1 (Oryza sativa), 5'ss of exon 5
GTGCAAAAGAGGAGAATATATGACATAACTAATGTTTTGGAAGGCATTGGTCTCATTGAAAAGAAGCTCAAGAACAGAATACATTGGAAgtactgtgacacatttttaatttttcttttgtgtatgtttcttgaagtttagatatatgtagtattagagcaaaattcttacatcaaaccttgtggaatatag
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GTTCGGAAACGGCGCATATATGACATAACAAATGTACTGGAAGGAACAGGTTTGATAGAAAAGAAGCTTAAGAACAGAATCCGTTGGAGgtaatctt---tatcttctgtttcccttgtatgcttgtatttatggtgtgagatgctaacctcatggcatcacag----------------------------
upper sequence: GLYMA10G09410.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM5G829408_T01 (Zea mays), 5'ss of exon 7
GTGCAAAAGAGGAGAATATATGACATAACTAATGTTTTGGAAGGCATTGGTCTCATTGAAAAGAAGCTCAAGAACAGAATACATTGGAAgtactgtgacacatttttaatttttcttttgtgtatgtttcttgaagtttagatatatgtagtattagagcaaaattcttacatcaaaccttgtggaatatag
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GTACAGAAAAGGCGTATATATGACATCACTAATGTTCTTGAAGGGATAGGACTGATAGAAAAGAAGCTTAAGAACAACATCCGTTGGAAgtaat------tattctcaatgtct-----gtatctgtaattggtggtttatgggcattacttaattcatgtggccttttgtag-------------------
upper sequence: GLYMA10G09410.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G333591_T01 (Zea mays), 5'ss of exon 7
GTGCAAAAGAGGAGAATATATGACATAACTAATGTTTTGGAAGGCATTGGTCTCATTGAAAAGAAGCTCAAGAACAGAATACATTGGAAgtactgtgacacatttttaatttttcttttgtgtatgtttcttgaagtttagatatatgtagtattagagcaaaattcttacatcaaaccttgtggaatatag
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GTACAGAAAAGGCGTATATATGACATCACTAATGTTCTTGAAGGGATAGGACTGATAGAAAAGAAGCTTAAGAACAACATCCGTTGGAAgtaat------tattctcaatgtct-----gtatctgtaattggtggttta----tgggcaata------cataattcatgtggcc--ttttgtag-------
upper sequence: GLYMA10G09410.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv08s0007g02510.t01 (Vitis vinifera), 5'ss of exon 5
GTGCAAAAGAGGAGAATATATGACATAACTAATGTTTTGGAAGGCATTGGTCTCATTGAAAAGAAGCTCAAGAACAGAATACATTGGAAgtactg-tgacacatttttaattttt-----cttttgtgtatgtttcttga-----agtttagatatatgta-gtattagagcaaaatt---cttacatcaaaccttgtggaat-atag-----
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GTTCAGAAGAGGCGGATATATGACATAACAAATGTTCTGGAAGGAATTGGTCTCATTGAAAAGAAGCTCAAGAACAGGATCCGCTGGAAgtaatcctgaaatattttatatctctaaaaatttgactgcttttatcttaggtttgagttgagattttagcaagcatttggagaacatgtaactcatctaagcattggttgaatgattgattag
upper sequence: GLYMA10G09410.1 (Glycine max), 5'ss of exon 5
lower sequence: PP1S364_42V6.1 (Physcomitrella patens), 5'ss of exon 5
GTGCAAAAGAGGAGAATATATGACATAACTAATGTTTTGGAAGGCATTGGTCTCATTGAAAAGAAGCTCAAGAACAGAATACATTGGAAgt-----actgtgacacattttt------aatttttcttttgtgtatgtttcttgaagtttagatatatgtagtatt------agagcaaaattcttacat-------caaaccttgtggaatatag-------------------------
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GTACAAAAGAGAAGAATTTATGACATCACCAATGTTTTGGAAGGGATCGGGTTAATTGAAAAGAAGCTGAAAAATCGGATTAGATGGAAgtcagtaaatttatctgctttttcaatgaaataacactgcaagttaaattgttggcattttatatccgcattttttttgaagaagagcaggagttgtacagtcgtgtacaggttttaagaagtctagttacttttgctaaatgtgggtgtagMapped 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|15663288|gb|BI700659.1|BI700659EST: GAAGGCATTGGTCTCATTGAAAAGAAGCTCAAGAACAGAATACATTGGAA GGGAATTGAATCTGCTACATCTGGTGATGTGGATGGTGATATCTCTTTGCT
genomic: GAAGGCATTGGTCTCATTGAAAAGAAGCTCAAGAACAGAATACATTGGAAgtactgtgac ... tggaatatagGGGAATTGAATCTGCTACATCTGGTGATGTGGATGGTGATATCTCTTTGCT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTGCAAAAGAGGAGAATATATGACATAACTAATGTTTTGGAAGGCATTGGTCTCATTGAAAAGAAGCTCAAGAACAGAATACATTGGAAgtactgtgacacatttttaatttttcttttgtgtatgtttcttgaagtttagatatatgtagtattagagcaaaattcttacatcaaaccttgtggaatatag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC