Sequence
atgc intronic sequence ATGC exonic sequenceGGAGAAACAGGAAAAATGTCTGCCAGTGATCCCAATTCTGCAATATATGTGACCGATTCTGCAAAAGATATAAAGAACAAGgtttgttaatgaaattactccaaagatttttgtattattatggtgcttacatttaattcttgtagattttgtccattgtgacaaaaattagctgtagatt...
Basic information
species | Glycine max |
transcript | GLYMA13G11390.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G11390.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os12g35570.3 (Oryza sativa), 5'ss of exon 7
GGAGAAACAGGAAAAATGTCTGCCAGTGATCCCAATTCTGCAATATATGTGACCGATTCTGCAAAAGATATAAAGAACAAGgtttg--ttaatgaaattactcca----aagatttttgtattattatggtgcttacatttaattcttgtagattttg----tccattgtgacaaaaattagctgtagatt--------------------------------------------------
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GGGGAGAACACAAAAATGTCGGCCAGTGATCCAAATTCTGCAATATATGTGACAGATAGTGCTAAAGAAATAAAGACAAAGgtttgctttaagcattgtattttagtggaaaactactgcaattttatatt--ttac-ctgaggccattcaaattttggtcttcaattaagtcaagcgtc--ctgtagccttatggttctgcttttcatgggcctgtcatttattttaccattttttccag
upper sequence: GLYMA13G11390.1 (Glycine max), 5'ss of exon 7
lower sequence: LOC_Os07g17770.1 (Oryza sativa), 5'ss of exon 5
GGAGAAACAGGAAAAATGTCTGCCAGTGATCCCAATTCTGCAATATATGTGACCGATTCTGCAAAAGATATAAAGAACAAGgtttgttaatgaaattactccaaagatttttgtattattatggt-gcttacatt-taat-tcttgtagat---tttgtccattg--tgacaaaaattagctgtag-att------
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GGGGAGAGCACTAAAATGTCGGCCAGTGACCCAAACTCTGCAATATATGTGACAGATAATTCTAAACAAATAAAGGCAAAGgtttcatc-tggaatatttactcaatcacacgctttagttcggccatttaaattatggtatcttgtagttctattatttcataggcttataaaagctatttccattattttccag
upper sequence: GLYMA13G11390.1 (Glycine max), 5'ss of exon 7
lower sequence: AT3G04600.2 (Arabidopsis thaliana), 5'ss of exon 9
GGAGAAACAGGAAAAATGTCTGCCAGTGATCCCAATTCTGCAATATATGTGACCGATTCTGCAAAAGATATAAAGAACAAGgtttgttaatgaaattactccaaagatttttgtattattatggtgc-ttacatttaattcttgta--gattttgtccattgtgacaaaaattagctgtagatt
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----AGAATGGAAAAATGTCTGCTAGTGATCCAAATTCTGCTATCTATGTGACTGATTCCGCAAAGGACATTAAAAACAAGgtaaattc-tgtaattctttttgttctttccat-ctattataacaagccattctgggtttccacatcaaccttgtaggctttcacacacattcatcgtctag-
upper sequence: GLYMA13G11390.1 (Glycine max), 5'ss of exon 7
lower sequence: AT3G04600.3 (Arabidopsis thaliana), 5'ss of exon 9
GGAGAAACAGGAAAAATGTCTGCCAGTGATCCCAATTCTGCAATATATGTGACCGATTCTGCAAAAGATATAAAGAACAAGgtttgttaatgaaattactccaaagatttttgtattattatggtgc-ttacatttaattcttgta--gattttgtccattgtgacaaaaattagctgtagatt
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GGAGAGAATGGAAAAATGTCTGCTAGTGATCCAAATTCTGCTATCTATGTGACTGATTCCGCAAAGGACATTAAAAACAAGgtaaattc-tgtaattctttttgttctttccat-ctattataacaagccattctgggtttccacatcaaccttgtaggctttcacacacattcatcgtctag-
upper sequence: GLYMA13G11390.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv12s0028g03370.t01 (Vitis vinifera), 5'ss of exon 8
GGAGAAACAGGAAAAATGTCTGCCAGTGATCCCAATTCTGCAATATATGTGACCGATTCTGCAAAAGATATAAAGAACAAGgtttgttaatgaaattactccaaagatttttgtattattatggtgcttacatttaattcttgtagattttgtccattgtgacaaaaattagctgtagatt--
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GGGGAGACAGGAAAAATGTCTGCTAGTGATCCCAATTCTGCAATATACGTGACTGATTCTGGAAAGGACATTAAGAACAAGgtttgtttctaaaattcctcgtaggcctttt-tataactcttttaagtatttctaata-tcaaagctcctactctatgagatcttgaaatgctccttgttctMapped 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|208110156|gb|GD904906.1|GD904906EST: CCAATTCTGCAATATATGTGACCGATTCTGCAAAAGATATAAAGAACAAG GTAAACAAACATGCGTTTTCTGGTGGGCAAGATTCTATAGAGAAACATAGG
genomic: CCAATTCTGCAATATATGTGACCGATTCTGCAAAAGATATAAAGAACAAGgtttgttaat ... ctctctgcagGTAAACAAACATGCATTTTCTGGTGGGCAAGATTCTATAGAGAAACATAGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGAGAAACAGGAAAAATGTCTGCCAGTGATCCCAATTCTGCAATATATGTGACCGATTCTGCAAAAGATATAAAGAACAAGgtttgttaatgaaattactccaaagatttttgtattattatggtgcttacatttaattcttgtagattttgtccattgtgacaaaaattagctgtagatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gacaaaaa