Sequence
atgc intronic sequence ATGC exonic sequenceCATTATTGCCACAATATCCCCTTCCATTCACTGTCTGGAAGAAACCCTTAGTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAGgtgacttttatagttgctcctttattttgatcaaccttttgctccttttatcaggcagcagagcatatctaatagtttaaagttgcttattttttcag
Basic information
species | Glycine max |
transcript | GLYMA15G04830.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 6
lower sequence: LOC_Os05g02670.2 (Oryza sativa), 5'ss of exon 8
CATTATTGCCACAATATCCCCTTCCATTCACTGTCTGGAAGAAACCCTTAGTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAGgtgacttttatagttgctcctttattttgatcaaccttttgctccttttatcaggcagcagagcatatctaatagtttaaagttgcttattttttcag
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CATTATTGCCACAATATCACCTTCAGTATATTGTTTGGAAGAGACACTGAGCACACTGGACTATGCACACCGTGCTAAAAATATCAAGAACAAGCCTGAGgttattgcctaagcaagttatat-ttatatctgactatttagtacagtaaatttgtggtagccta-acttgctcttctta--ctgccaatatt--cag
upper sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 6
lower sequence: GRMZM2G024576_T01 (Zea mays), 5'ss of exon 6
CATTATTGCCACAATATCCCCTTCCATTCACTGTCTGGAAGAAACCCTTAGTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAGgtgacttttatagttgctcctttattttgatcaaccttt--------tgctccttttatcaggcagcagagcatatctaatagtttaaagttg-cttattttttcag-----------
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CATTATTGCTACAATATCACCTTCAGTATATTGTTTGGAAGAGACATTGAGCACACTTGATTATGCACACCGTGCAAAAAATATCAAGAACAAACCAGAGgttatatttattatgttttatttgtttggattagtcagtcatactgatgtttattatttcagacagtacaaactttacaattggttgctgtaggctaacttacttatgtaaaattcag
upper sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 6
lower sequence: AT3G45850.1 (Arabidopsis thaliana), 5'ss of exon 7
CATTATTGCCACAATATCCCCTTCCATTCACTGTCTGGAAGAAACCCTTAGTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAGgtgacttttatagttgctcctttattttgatcaaccttttgctccttttatcaggcagcagagcatatctaatagtttaaagttgcttattttttcag
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TGTAATCGCCACAATTTCACCTTCCATCCACTGTTTAGAAGAGACTCTAAGCACTTTGGATTATGCACATCGCGCCAAGAATATCAAGAACAAACCAGAGgtgagtcttagcgacattcttctg-------caa--tattatctcttgaataaaacaacag-----ctctaacagctt-----cctctttgattccag
upper sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 6
lower sequence: Vv06s0004g03810.t01 (Vitis vinifera), 5'ss of exon 7
CATTATTGCCACAATATCCCCTTCCATTCACTGTCTGGAAGAAACCCTTAGTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAGgtgacttttatagttgctccttt-----attttgatcaaccttttgctccttttatc----------aggcagca-gagcatatc-taatagtttaaagttgcttattttttcag
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CATAATTGCCACAATATCGCCCTCCATTCACTGCTTGGAAGAGACGCTCAGCACTCTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAGCCAGAGgtcagtagtttagtcatgtgtactaggggccttggttgctatttctttcctcagattttgaagttggagtcagtttgaaaatgctgtaatagtttaactttgttt-ctgtttcag
upper sequence: GLYMA15G04830.1 (Glycine max), 5'ss of exon 6
lower sequence: PP1S6_143V6.1 (Physcomitrella patens), 5'ss of exon 7
CATTATTGCCACAATATCCCCTTCCATTCACTGTCTGGAAGAAACCCTTAGTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAGgtgacttttatagttgctcctttattttgatcaaccttttgctccttttatcaggcagcagagcatatctaatagtttaaagttgcttattttttcag
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TATAATTGCCACCGTCTCGCCCTCAGTTCCTTGTCTCGAAGAGACACTGAGTACATTGGATTATGCATATCGTGCCAAAAACATCAAGAACAAGCCTGAGgttggtctctt--ttg-tcaaccatgttt-tcaatgtttt-caaagttcgt-aggtgtggaagattgtctaattttttg----tattaactttttcagMapped 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|208260972|gb|GE059910.1|GE059910EST: GTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAG ATTAATCAGAAAATGATGAGATCTGCAATGATTAAGGATTTGTATTCAGAA
genomic: GTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAGgtgactttta ... attttttcagATTAATCAGAAAATGATGAAATCTGCAATGATTAAGGATTTGTATTCAGAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CATTATTGCCACAATATCCCCTTCCATTCACTGTCTGGAAGAAACCCTTAGTACCTTGGATTATGCACACCGTGCCAAAAATATCAAGAACAAACCAGAGgtgacttttatagttgctcctttattttgatcaaccttttgctccttttatcaggcagcagagcatatctaatagtttaaagttgcttattttttcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC