Sequence
atgc intronic sequence ATGC exonic sequenceGCCATATTCCTTGCTGCCAAGTTTCTGAAGGTGAAGCTACCATCGGATGGGGAGAAGGTCTGGTGGCAAGAGTTTGATGTCACTCCACGCCAATTGGAGGgttggtgtctttttattcagtactagtcgtataaagaaatgaggaaaaaaaagtaccatctcattatcatctctcttttttatctttcctcttattcatg...
Basic information
species | Glycine max |
transcript | GLYMA15G41040.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G41040.1 (Glycine max), 5'ss of exon 5
lower sequence: LOC_Os12g30020.2 (Oryza sativa), 5'ss of exon 6
GCCATATTCCTTGCTGCCAAGTTTCTGAAGGTGAAGCTACCATCGGATGGGGAGAAGGTCTGGTGGCAAGAGTTTGATGTCACTCCACGCCAATTGGAGGgttggtgtctttttattcagtactagtcgtataaagaaatgaggaaaaaaaagtaccatctcattatcatctctcttttttatc-tttcctcttattcatg--
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GCTATCTTTTTGGCTGCTAAATTTCTCAAAGTGAAGCTTCCATCTGATGGTGAGAAGGTTTGGTGGCAGGAGTTTGATGTGACTCCAAGACAGCTGGAAGgttggtgcctagataat--gttgtgttc-tatacttctatctggtccatatgacggtttacaacaatctcctgagttttaaaccgcatattttttttaacgag
upper sequence: GLYMA15G41040.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G308570_T02 (Zea mays), 5'ss of exon 14
GCCATATTCCTTGCTGCCAAGTTTCTGAAGGTGAAGCTACCATCGGATGGGGAGAAGGTCTGGTGGCAAGAGTTTGATGTCACTCCACGCCAATTGGAGGgttggtgtctttttattcagt-actagt-cgta---taaagaaatgaggaaaaaaaagtaccatctcattatcatctctcttttttatctttcctcttattcatg
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GCAATCTTCCTGGCTGCGAAGTTTCTTAAAGTCAAGCTTCCATCAGATGGCGAGAAGGTCTGGTGGCAAGAGTTTGATGTAACTCCGCGGCAGTTGGAAGgttggtctctagatgcaaagtcactagtgtgcaacttaactgcactactgtaaaaaaacaatgtcgtaagtgctagtttcctactaattagctatctagt-----
upper sequence: GLYMA15G41040.1 (Glycine max), 5'ss of exon 5
lower sequence: AC233979.1_FGT009 (Zea mays), 5'ss of exon 5
GCCATATTCCTTGCTGCCAAGTTTCTGAAGGTGAAGCTACCATCGGATGGGGAGAAGGTCTGGTGGCAAGAGTTTGATGTCACTCCACGCCAATTGGAGGgttggtgtctttttattcagt-actagtcgtataaag-aaatgaggaaaaaaaagtaccatctcattatcatctctcttttttatctttcctcttattcatg-
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GCAATCTTCCTCGCTGCGAAGTTTCTCAAAGTCAAGCTTCCATCAGATGGCGAGAAGGTCTGGTGGCAAGAGTTTGATGTAACTCCGTGGCAGCTGGAAGgttggtctctagatgcaaagtcactagt-gtgcaccttaactgcactactgtaaaattcattt--ttgtaagtgctagtttcctactaattagctatctagta
upper sequence: GLYMA15G41040.1 (Glycine max), 5'ss of exon 5
lower sequence: GRMZM2G115670_T01 (Zea mays), 5'ss of exon 5
GCCATATTCCTTGCTGCCAAGTTTCTGAAGGTGAAGCTACCATCGGATGGGGAGAAGGTCTGGTGGCAAGAGTTTGATGTCACTCCACGCCAATTGGAGGgttggtgtctttttattcagtac-tagtcgtataaagaaatgaggaaaaaaaagtaccatctcattatcatctctc-ttttttatctttcctcttattcatg
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GCTATCTTTTTGGCTGCTAAATTTCTCAAAGTGAAGCTTCCATCTGATGGTGATAAGGTTTGGTGGCAGGATTTTGATGTCACACCACGGCAGCTTGAAGgttggtccttgtttgcaaagcctgtgatgaaacatttccttctgctttattttgtat-atatgttctgcatacgacatgctttactgattgaattattatc-
upper sequence: GLYMA15G41040.1 (Glycine max), 5'ss of exon 5
lower sequence: Vv19s0027g01670.t01 (Vitis vinifera), 5'ss of exon 5
GCCATATTCCTTGCTGCCAAGTTTCTGAAGGTGAAGCTACCATCGGATGGGGAGAAGGTCTGGTGGCAAGAGTTTGATGTCACTCCACGCCAATTGGAGGgttggtgtctttt--tattcagtactagtcgtataaagaaatgaggaaaaaaaagtaccatctcattatcatctctcttttttatctttcctcttattcatg
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GCAATTTTCCTTGCTGCCAAGTTCCTCAAAGTAAAGCTCCCATCAGATGGTGAGAAGGTCTGGTGGCAGGAGTTCGATGTCACCCCACGCCAATTAGAGGgttggtttcctctcttattttctg-tagcagcattatagacctatgatgacagagtgccttcccttttctctttttatatgataaacatattcattatcaa-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|120530094|gb|EH258228.1|EH258228EST: GGAGAAGGTCTGGTGGCAAGAGTTTGATGTCACTCCACGCCAATTGGAGG -AGTTAGTAATCAAATGTTAGAGCTCTATGAACAAAATCGAATGCCACCTT
genomic: GGAGAAGGTCTGGTGGCAAGAGTTTGATGTCACTCCACGCCAATTGGAGGgttggtgtct ... ttttttgcagAAGTTAGTAATCAAATGTTAGAGCTCTATGAACAAAATCGAATGCCACCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GCCATATTCCTTGCTGCCAAGTTTCTGAAGGTGAAGCTACCATCGGATGGGGAGAAGGTCTGGTGGCAAGAGTTTGATGTCACTCCACGCCAATTGGAGGgttggtgtctttttattcagtactagtcgtataaagaaatgaggaaaaaaaagtaccatctcattatcatctctcttttttatctttcctcttattcatg
- - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaaaaaa