Sequence
atgc intronic sequence ATGC exonic sequencegtttttcctttatttgtcttgaaatttatacaaactccaagttcaagtctttttcttgagtgaacccttgattaattattactatttttcgggggggattttcagGAGGCTTTGAAGAATATATTAATTATTTTTGCAAAGTTAAACCCGGGTGTAAGATATGTGCAAGGAATGAATGAGATATTGGCTCCTCTATTCTACGTGT
Basic information
species | Glycine max |
transcript | GLYMA08G11760.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G11760.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os04g30880.1 (Oryza sativa), 3'ss of exon 5
gtttttcctttatttgtcttgaaatttatacaaactccaagttcaagtctttttcttgagtgaaccctt-gattaattattactatttttcgggggggattttcagGAGGCTTTGAAGAATATATTAATTATTTTTGCAAAGTTAAACCCGGGTGTAAGATATGTGCAAGGAATGAATGAGATATTGGCTCCTCTATTCTACGTGT
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---------gtaagcatttattatctgatatga--tgccagttctttttgtcttttgtaatgtccagttaggctaaatgtgatatatgtttg-------tcttcagGAGTCGCTAAAGCGTATACTTACCATATTTGCAAAATTAAATCCGGGTATAAGATATGTACAAGGAATGAATGAAGTTTTGGCACCACTCTACTATGTTT
upper sequence: GLYMA08G11760.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G022308_T02 (Zea mays), 3'ss of exon 6
gtttttcctttatttgtcttgaaatttatacaaactccaagttcaagtctttttcttgagtgaacccttgattaattattactatttttcgggggggattttcagGAGGCTTTGAAGAATATATTAATTATTTTTGCAAAGTTAAACCCGGGTGTAAGATATGTGCAAGGAATGAATGAGATATTGGCTCCTCTATTCTACGTGT
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-----------------gtaggtgtgttccctgacatgggatcactttttttttgttgtcagtaacattgttcagtttttctaatgcaatatgttttgtttctagGAGTCACTAAAGCGTATACTTACAATATTTGCAAAATTGAATCCGGGTATAAGATATGTACAAGGAATGAATGAGGTTTTGGCACCTCTCTATTATGTTT
upper sequence: GLYMA08G11760.1 (Glycine max), 3'ss of exon 5
lower sequence: AT4G13730.2 (Arabidopsis thaliana), 3'ss of exon 5
-----gtttttcctttatt-tgtcttgaaatttatacaa-actccaagttcaagtctttttcttgagtgaacccttgattaattattactatttttcgggggggattttcagGAGGCTTTGAAGAATATATTAATTATTTTTGCAAAGTTAAACCCGGGTGTAAGATATGTGCAAGGAATGAATGAGATATTGGCTCCTCTATTCTACGTGT
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gttgggtgttggttttgctatagtttaaagcctttgggatgattaaaacatcagtatactgatagttt---ttcttgtctttttatacatgttttgc-------atgtctagGATGCTTTGAAGAACATTTTGACTATTTTCGCAAAGTTGAATCCTGGCATCAGATATGTACAAGGGATGAATGAGATATTGGCACCTATTTTCTACATCT
upper sequence: GLYMA08G11760.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv05s0029g01350.t01 (Vitis vinifera), 3'ss of exon 5
gtttttcctttatttgtcttgaaatttatacaaactccaagttcaagtctttttcttgagtgaacccttgattaattattactatttttcgggggggat-tttcagGAGGCTTTGAAGAATATATTAATTATTTTTGCAAAGTTAAACCCGGGTGTAAGATATGTGCAAGGAATGAATGAGATATTGGCTCCTCTATTCTACGTGT
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---------------------------gtatgtgttgttacttgaggcatgagacttgatacaaacatcacccatttgaccaaattaaatggatcctgtatttcagGATGCTTTGAGGAACATATTGATTGTGTTTGCAAAGTTGAATCCGGGTATAAGATATGTGCAAGGGATGAATGAAATTTTGGCGCCTCTATTCTATGTATMapped 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|192328951|gb|FK019678.1|FK019678EST: CTGATACGCACTTTTTCTCTGGTGATTCCCAATTTGCAAAATCTAATCAG GAGGCTTTGAAGAATATATTAATTATTTTTGCAAAGTTAAACCCGGGTGTA
genomic: CTGATATGCACTTTTTCTCTGGTGATTCCCAATTTGCAAAATCTAATCAGgtttttcctt ... ggattttcagGAGGCTTTGAAGAATATATTAATTATTTTTGCAAAGTTAAACCCGGGTGTA
EST:
gi|8286250|gb|BE023809.1|BE023809EST: CTGATATGCACTTTTTCTCTGGTGATTCCCAATTTGCAAAATCTAATCAG GAGGCTTTGAAGAATA
genomic: CTGATATGCACTTTTTCTCTGGTGATTCCCAATTTGCAAAATCTAATCAGgtttttcctt ... ggattttcagGAGGCTTTGAAGAATA
EST:
gi|207710952|gb|GD694016.1|GD694016EST: CTGATATGCACTTTTTCTCTGGTGATTCCCAATTTGCAAAATCTAATCAG GAGGCTTTGAAGAATATATTAATTATTTTTGCAAAGTTAAACCTGGGTGTA
genomic: CTGATATGCACTTTTTCTCTGGTGATTCCCAATTTGCAAAATCTAATCAGgtttttcctt ... ggattttcagGAGGCTTTGAAGAATATATTAATTATTTTTGCAAAGTTAAACCCGGGTGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcttgagtgaacccttgattaattattactatttttcgggggggattttcagGAGGCTTTGAAGAATATATTAATTATTTTTGCAAAGTTAAACCCGGGTGTAAGATATGTGCAAGGAATGAATGAGATATTGGCTCCTCTATTCTACGTGT
gattaat putative branch site (score: 3)
ttttc putative PPT
ttgattaattattact 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttttcctttatttgtcttgaaatttatacaaactccaagttcaagtctttttcttgagtgaacccttgattaattattactatttttcgggggggattttcagGAGGCTTTGAAGAATATATTAATTATTTTTGCAAAGTTAAACCCGGGTGTAAGATATGTGCAAGGAATGAATGAGATATTGGCTCCTCTATTCTACGTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC