Sequence
atgc intronic sequence ATGC exonic sequence...caatttaagaaaaaagtgtggttgtaatttgtatgaatgtgttttgccttccaagctcgtgtttggtcaaattttggaactaagaaattttggtgatcagGATACACAATTGCTTCTGTGGGACCTGGAAATGGACGAGATTGTAGTGCCCTTGAGGCGGCCACCTGGTGGATCCCCGACTTACAGTACTGGAAGCCAGT
Basic information
species | Glycine max |
transcript | GLYMA03G33740.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G33740.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os12g07450.3 (Oryza sativa), 3'ss of exon 10
caatttaagaaaaaagtgtggttgtaatttgtatgaatgtgttttgcc-ttccaagctcgtgtttggtcaaattttggaactaagaaattttggtgatc--agGATACACAATTGCTTCTGTGGGACCTGGAAATGGACGAGATTGTAGTGCCCTTGAGGCGGCCACCTGGTGGATCCCCGACTTACAGTACTGGAAGCCAGT
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tggttagttatagtgatgagattc--atttgggcaagt-tatttggcaattctttttacatgttctatcgctggcataacttttcactgtttcatgctcctagGACACACAACTGCTTCTGTGGGACCTGGCATTGGATGAGATTGCTGTCCCACTACGACATCCTTCCAGTGGCTCACCAACTTTTAGTAGCGGCAGCCCTT
upper sequence: GLYMA03G33740.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv08s0040g01960.t01 (Vitis vinifera), 3'ss of exon 10
--caatttaagaaaaaagtgtggttgtaatttgtatgaatgtgttttgcct---tccaagctcgtgtttggtcaaattttggaactaagaaattttggtgatcagGATACACAATTGCTTCTGTGGGACCTGGAAATGGACGAGATTGTAGTGCCCTTGAGGCGGCCACCTGGTGGATCCCCGACTTACAGTACTGGAAGCCAGT
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atcaatttaa-aaaaaatcgtatttatacattttgttgttctgctccacatgtcttcatgtccatgttgaacca--ttgtgcaacttgtc--tttctgtgagcagGACACACAGTTACTTCTATGGGACCTGGAAATGGATGAGATTGTAGTGCCACTTCGCAGATGTCCTGGTGGGTCCCCAACTTTCAGTACCGGAAGCCAAT
upper sequence: GLYMA03G33740.1 (Glycine max), 3'ss of exon 10
lower sequence: EFJ38679 (Selaginella moellendorffii), 3'ss of exon 10
caatttaagaaaaaagtgtggttgtaatttgtatgaatgtgttttgccttccaagctcgtgtttggtcaaattttggaactaagaaattttggtgatcagGATACACAATTGCTTCTGTGGGACCTGGAAATGGACGAGATTGTAGTGCCCTTGAGGCGGCCACCTGGTGGATCCCCGACTTACAGTACTGGAAGCCAGT-----
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-----------------------gtaagtgata-aaacaagcttcga-ttctag---caaaatggatacagaactaagacctcgttgtcaacttcgcaagGACACACAATTACTGCTGTGGGACCTGGCAATGGACGAGGTGGTGATGCCATTCCGGAAGCTAGCAG-----CCCCCGGCTCATCACCGGGGGGCCTGGCCGGCTMapped 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|17023019|gb|BM094053.1|BM094053EST: CAAATGACAATGGAGAGACTGTTACATATCGTTTTGGTTCTGTTGGTCAG GATACACAATTGCTTCTGTGGGACCTGGAAATGGACGAGATTGTAGTGCCC
genomic: CAAATGACAATGGAGAGACTGTTACATATCGTTTTGGTTCTGTTGGTCAGgtgctcagaa ... tggtgatcagGATACACAATTGCTTCTGTGGGACCTGGAAATGGACGAGATTGTAGTGCCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gccttccaagctcgtgtttggtcaaattttggaactaagaaattttggtgatcagGATACACAATTGCTTCTGTGGGACCTGGAAATGGACGAGATTGTAGTGCCCTTGAGGCGGCCACCTGGTGGATCCCCGACTTACAGTACTGGAAGCCAGT
aactaagaaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caatttaagaaaaaagtgtggttgtaatttgtatgaatgtgttttgccttccaagctcgtgtttggtcaaattttggaactaagaaattttggtgatcagGATACACAATTGCTTCTGTGGGACCTGGAAATGGACGAGATTGTAGTGCCCTTGAGGCGGCCACCTGGTGGATCCCCGACTTACAGTACTGGAAGCCAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - aagaaaa
- - - - - - - - -gtggttg
- - - - - - - - - - - - - - -tgtatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgtttg