Sequence
atgc intronic sequence ATGC exonic sequence...gatacttctccattcttatatctaaaacctgatttagaatatgttgtttgactgcataattttgtgggtatctgatactatttttttattctttttctagGTTGGAAGCAGGTTCGGGGAGAGTACTTTTAAACTGGGATCCATACTAACTGATGGTCAAGTTGGCATATTTAAGGATAGATCTGCAGCTGCCATGTCCT
Basic information
species | Glycine max |
transcript | GLYMA10G34570.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G34570.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G16300.2 (Arabidopsis thaliana), 3'ss of exon 5
-----------------------------------------------------------------------------gatacttctccattcttatatctaaaacctgatttagaatatg-ttgtttgactgc-ataattttgtgggtatctgatactatttttttattctttttctagGTTGGAAGCAGGTTCGGGGAGAGTACTTTTAAACTGGGATCCATACTAACTGATGGTCAAGTTGGCATATTTAAGGATAGATCTGCAGCTGCCATGTCCT------------------
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gcaagaaactcatggaaggcatttacaaacggcgagcaatctcaaacaagtgatttagaagaaaattccaatttcggcgtggcttttaagtctttcatgcaggtaaaggtttaggctttggttaattaatggctacaatgttgta---atcgggt-ttagtatattagaccatgtataaattgttt-----tttcagGAAAGCACATTGAAACTGGGATCAATATTAACTGATGGACAAGTGGGAATATTCAAGGACAGATCAGCAGCCGCTATGTCGACATTTGGCGATATACTAC
upper sequence: GLYMA10G34570.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G16300.1 (Arabidopsis thaliana), 3'ss of exon 5
gatacttctccattcttatatctaaaacctgatttagaatatg-ttgtttgactgc-ataattttgtgggtatctgatactatttttttattctttttctagGTTGGAAGCAGGTTCGGGGAGAGTACTTTTAAACTGGGATCCATACTAACTGATGGTCAAGTTGGCATATTTAAGGATAGATCTGCAGCTGCCATGTCCT------------------
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---------------------gtaaa----ggtttaggctttggttaattaatggctacaatgttgta---atcgggt-ttagtatattagaccatgtataaattgttt-----tttcagGAAAGCACATTGAAACTGGGATCAATATTAACTGATGGACAAGTGGGAATATTCAAGGACAGATCAGCAGCCGCTATGTCGACATTTGGCGATATACTAC
upper sequence: GLYMA10G34570.1 (Glycine max), 3'ss of exon 6
lower sequence: AT5G16300.3 (Arabidopsis thaliana), 3'ss of exon 5
gatacttctccattcttatatctaaaacctgatttagaatatg-ttgtttgactgc-ataattttgtgggtatctgatactatttttttattctttttctagGTTGGAAGCAGGTTCGGGGAGAGTACTTTTAAACTGGGATCCATACTAACTGATGGTCAAGTTGGCATATTTAAGGATAGATCTGCAGCTGCCATGTCCT-----------------------
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-------------------------------gtttaggctttggttaattaatggctacaatgttgta---atcgggt-ttagtatattagaccatgtataaattgttt-----tttcaggaaagCACATTGAAACTGGGATCAATATTAACTGATGGACAAGTGGGAATATTCAAGGACAGATCAGCAGCCGCTATGTCGACATTTGGCGATATACTACCGGCT
upper sequence: GLYMA10G34570.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv00s0340g00080.t01 (Vitis vinifera), 3'ss of exon 5
gatacttctccattcttatatctaaaa---cctgatttagaatatgttgt---ttgactgcataattttgtgggtatctgatactatttttttattctttttctagGTTGGAAGCAGGTTCGGGGAGAGTACTTTTAAACTGGGATCCATACTAACTGATGGTCAAGTTGGCATATTTAAGGATAGATCTGCAGCTGCCATGTCCT
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--ctctttcttgctagaatatctgaaaaggcaaggtttttacagctttgtacattaacttcccagttttgaggctacaaaat----tccttcctccatttgtctagGTTGGCAGCAGGTTTGGAGAAAGCACGCTGAAACTGGGATCCATATGGACAGATGGACAAGTGGGCAAATTCAAGGACAAATCTGCAGCTGCCATGTCAAMapped 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|20498322|gb|BQ273252.1|BQ273252EST: ACAGTTCAAGTCTGGGGGTGGCAGCACCCTTACTGAAGTCTTTTATGCAG GTTGGAAGCAGGTTCGGGGAGAGTACTTTTAAACTGGGATCCATACTAACT
genomic: ACAGTTCAAGTCTGGGGGTGGCAGCACCCTTACTGAAGTCTTTTATGCAGgtaagccatc ... ctttttctagGTTGGAAGCAGGTTCGGGGAGAGTACTTTTAAACTGGGATCCATACTAACT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttgactgcataattttgtgggtatctgatactatttttttattctttttctagGTTGGAAGCAGGTTCGGGGAGAGTACTTTTAAACTGGGATCCATACTAACTGATGGTCAAGTTGGCATATTTAAGGATAGATCTGCAGCTGCCATGTCCT
atctgat putative branch site (score: 4)
tactatttttttattc CT-rich tract
tatctgatactatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatacttctccattcttatatctaaaacctgatttagaatatgttgtttgactgcataattttgtgggtatctgatactatttttttattctttttctagGTTGGAAGCAGGTTCGGGGAGAGTACTTTTAAACTGGGATCCATACTAACTGATGGTCAAGTTGGCATATTTAAGGATAGATCTGCAGCTGCCATGTCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC