Sequence
atgc intronic sequence ATGC exonic sequencegtgagtttacattatgatgattcattcaatgagttttgattctgtattttactgatctgcatacctaaattatgtgcatctggaaatttcccttctatgatcatgctgacattttttcccttttttttcaatgtagGTTAATGCAAGTGGTCAATTTTGTGGGGTTGCTGAGATGATTGGACCTGTTGACTTCAATAAGGACATGGACTTTTGGCAGCAAGATAAATGGAGTGGGA
Basic information
species | Glycine max |
transcript | GLYMA07G36110.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G36110.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g22630.1 (Oryza sativa), 3'ss of exon 5
gtgagtttacattatgatgattcattcaatgagttttgattctgtattttactgatctgcatacctaaattatgtgcatctggaaatttcccttctatgatcatgctgacattttttcccttttttttcaatgtagGTTAATGCAAGTGGTCAATTTTGTGGGGTTGCTGAGATGATTGGACCTGTTGACTTCAATAAGGACATGGACTTTTGGCAGCAAGATAAATGGAGTGGGA
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-------------------------------------------gtaagtacct--ctaatgtattcaaactacatttattcag-----tgttgtctgtgattaaaatattaattctgggatttcttgtttat-cagGTGAATGGTAGTGGGCTCTTCTGTGGCATGGCTGAGATGGTTGGTCCTGTTGATTTTCATAAGGACATGGACTTTTGGTGTCAGGATAAATGGACTGGCA
upper sequence: GLYMA07G36110.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G48110.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgagtttacattatgatgattcattcaatgagttttgattctgtattttactgatctgcatacctaaattatgtgcatctggaaatttcccttctatgatcatgctgacattttttcccttttttttcaatgtagGTTAATGCAAGTGGTCAATTTTGTGGGGTTGCTGAGATGATTGGACCTGTTGACTTCAATAAGGACATGGACTTTTGGCAGCAAGATAAATGGAGTGGGA
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---------------------------------------------------gtgagtttttccttctctctttttacatgctagcttgtttgtgttaagcttattctgatgcattgcttttcttttt-------agGTTAATGCCAGTGGTTTGTTCTGTGGCATGGCTGAGATGACTGGTCCAGTTTCTTTTGATAAAGACATGGATTTTTGGCAGCAAGACAAATGGAGTGGAA
upper sequence: GLYMA07G36110.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G17330.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgagtttacattatgatgattcattcaatgagttttgattctgtattttactgatctgcatacctaaattatgtgcatctggaaatttcccttctatgatcatgctgacattttttcccttttttttcaatgtagGTTAATGCAAGTGGTCAATTTTGTGGGGTTGCTGAGATGATTGGACCTGTTGACTTCAATAAGGACATGGACTTTTGGCAGCAAGATAAATGGAGTGGGA
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-----------------------------------gtgagtcgattcttccc----ctttgtcccttgtgcgaatgtgtttgca--ttcatactttgtgctcatgctgatgtagtgcttccttcgttt-----tagGTCAATTCCAGTGGTCTGTTCTGTGGCGTGGCTGAGATGACCGGTCCAGTTTCCTTCGACCGAGACATGGATTTTTGGCAGCAAGACAAATGGAGTGGAA
upper sequence: GLYMA07G36110.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv05s0020g00460.t01 (Vitis vinifera), 3'ss of exon 6
gtgagtttacattatgatgattcattcaatgagttttgattct--gtattttactgatct--gcatacctaaattatgtgcatct-ggaaatttcccttctatgatcatgctgacattttttcccttttttttcaatgtagGTTAATGCAAGTGGTCAATTTTGTGGGGTTGCTGAGATGATTGGACCTGTTGACTTCAATAAGGACATGGACTTTTGGCAGCAAGATAAATGGAGTGGGA
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gtgagttt-tgtcctctctcctctcctagttggctatggaccataacacttatttgatttttgcagctctatattttgtgcttcttggttgtatgatttcagcaacggccctg---cttatgtgaaaatttcttcatacagGTCAATGCAAGCGGCCAATTCTGTGGTGTTGCAGAGATGATTGGCCCTGTTGATTTCCATAAGGATATGGACTTCTGGCAGCAAGATAAGTGGAGTGGAAMapped 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|22523790|gb|BU082601.1|BU082601EST: TAAGAGAATAGCTTCTGGAAAATTTGGAAGCTGCCCAATCTTTCTTTTCTTTTCT
genomic: TAAGAGAATAGCTTCTGGAAAATTTGGAAGCTGCCCAATCTTTCTTTTCTTTTCTgtgagtttac ... ttcaat
EST:
gi|22523842|gb|BU082653.1|BU082653EST: TAAGAGAATAGCTTCTGGAAAATTTGGAAGCTGCCCAATCTTTCTTTTCTTTTCT
genomic: TAAGAGAATAGCTTCTGGAAAATTTGGAAGCTGCCCAATCTTTCTTTTCTTTTCTgtgagtttac ... ttcaat
EST:
gi|22523811|gb|BU082622.1|BU082622EST: TTATAGAATAGCTTCTGGAAAATTTGGAAGCTGCCCAATCTTTCTTTTCTTTTCT
genomic: TAAGAGAATAGCTTCTGGAAAATTTGGAAGCTGCCCAATCTTTCTTTTCTTTTCTgtgagtttac ... ttcaat
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaaatttcccttctatgatcatgctgacattttttcccttttttttcaatgtagGTTAATGCAAGTGGTCAATTTTGTGGGGTTGCTGAGATGATTGGACCTGTTGACTTCAATAAGGACATGGACTTTTGGCAGCAAGATAAATGGAGTGGGA
tgctgac putative branch site (score: 2)
ctgacattttttccct CT-rich tract
ttttttttcaatgta TA-rich tract
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtttacattatgatgattcattcaatgagttttgattctgtattttactgatctgcatacctaaattatgtgcatctggaaatttcccttctatgatcatgctgacattttttcccttttttttcaatgtagGTTAATGCAAGTGGTCAATTTTGTGGGGTTGCTGAGATGATTGGACCTGTTGACTTCAATAAGGACATGGACTTTTGGCAGCAAGATAAATGGAGTGGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA