Sequence
atgc intronic sequence ATGC exonic sequenceAGTTGGGCAAACTGAAGGGGAAAAGCGGGAGAAGGAAGAACAGGTTGCTAGGTGTGAAGCATATATTGATGGCATGGAATCAAAGTTGCAAGCTTGCCAGgtttgtcttgatcaagagattgtacttttcttatttactatttttataatttgttattgtttatcaccttaatatgcttacattttcaacctatacaatgaggttaaacctatttcagcggtggaacttcccgttttgaactagttgtgtgaagtgtaatacagtaggttaatgggtgttttccttttgcag
Basic information
species | Glycine max |
transcript | GLYMA04G06960.1 |
intron # | 10 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA04G06960.1 (Glycine max), 5'ss of exon 10
lower sequence: GRMZM2G041842_T01 (Zea mays), 5'ss of exon 6
AGTTGGGCAAACTGAAGGGGAAAAGCGGGAGAAGGAAGAACAGGTTGCTAGGTGTGAAGCATATATTGATGGCATGGAATCAAAGTTGCAAGCTTGCCAGgtttgtcttgatcaagagattgtacttttcttatttactatttttataatttgttat-tgtttatcaccttaatatgcttacattttcaacctatacaatgaggttaaacctatttcagcggtggaacttcccgttttgaactagttgtgtgaagtgtaatacagtaggttaatgggtgttttccttttgcag
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AGTGGGGCAAACAGAGGGAGAAAAAAGGGAAAAAGAAGAGCAAATTACTCGTTGTGAAGCATACATTGATGGGATGGAATCCAAACTGCAAGTTTGCCAGgttt-------ccaccttgctattttttttatgttt-ccacaattactgtatgttccacacttagcacctctat-tgtctactttttcaaatggcttgttaaaaatgtg------------------------------------------------------------------------------------
upper sequence: GLYMA04G06960.1 (Glycine max), 5'ss of exon 10
lower sequence: AT2G25320.1 (Arabidopsis thaliana), 5'ss of exon 9
AGTTGGGCAAACTGAAGGGGAAAAGCGGGAGAAGGAAGAACAGGTTGCTAGGTGTGAAGCATATATTGATGGCATGGAATCAAAGTTGCAAGCTTGCCAGgtttgtcttgatcaagagattgtacttttcttatttactatttttataatttgttattgtttatcaccttaatatgcttacattttcaacctatacaatgaggttaaacctatttcagcggtggaacttcccgttttgaactagttgtgtgaagtgtaatacagtaggttaatgggtgttttccttttgcag
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AGTAGGACAGACAAAAGAAGAGAAACGAGAGAAAGAAGATCAGATTGCTCGGTGTGAAGCTTACATTGATGGAATGGAATCCAAACTCCAAGCTTGCCAGgtttga--taat--ataattttttcttttcttatt--ctgcttttct--tttagaagtttagaactcacttaaactcgtatgctgtgatttttttcaacag-------------------------------------------------------------------------------------------
upper sequence: GLYMA04G06960.1 (Glycine max), 5'ss of exon 10
lower sequence: Vv04s0008g05690.t01 (Vitis vinifera), 5'ss of exon 9
AGTTGGGCAAACTGAAGGGGAAAAGCGGGAGAAGGAAGAACAGGTTGCTAGGTGTGAAGCATATATTGATGGCATGGAATCAAAGTTGCAAGCTTGCCAGgtttgtcttgatcaagagattgtacttttcttatttactatttttataatttgttattgtttatcaccttaatatgcttacattttcaacctatacaatgaggttaaacctatttcagcggtggaacttcccgttttgaactagttgtgtgaagtgtaatacagtaggttaatgggtgttttccttttgcag
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AGTTGGCCAAACTGAAGGAGAAAAGCGGGAGAAGGAAGAGCAGGTTGCTCGATGTGAAGCATACATTGATGGAATGGAATCAAAATTGCAAGCCTGCCAGgttt---------------------ttgccttctacacagcttctgtagtttttt-tcttttctcatttcaatctacttg--gtcaaaatcacttgcatggatttgaaactactttattttttg--------------------------------------------------------------------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|19053777|gb|BM732444.1|BM732444EST: GGTGTGAAGCATATATTGATGGCATGGAATCAAAGTTGCAAGCTTGCCAG CAATATATTCACACACTTGAGGCCTCACTCCAGGAGGAAATGTCAAGACAT
genomic: GGTGTGAAGCATATATTGATGGCATGGAATCAAAGTTGCAAGCTTGCCAGgtttgtcttg ... ccttttgcagCAATATATTCACACACTTGAGGCCTCACTCCAGGAGGAAATGTCAAGACAT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AGTTGGGCAAACTGAAGGGGAAAAGCGGGAGAAGGAAGAACAGGTTGCTAGGTGTGAAGCATATATTGATGGCATGGAATCAAAGTTGCAAGCTTGCCAGgtttgtcttgatcaagagattgtacttttcttatttactatttttataatttgttattgtttatcaccttaatatgcttacattttcaacctatacaatgaggttaaacctatttcagcggtggaacttcccgttttgaactagttgtgtgaagtgtaatacagtaggttaatgggtgttttccttttgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT