Sequence
atgc intronic sequence ATGC exonic sequence...atgtatctttatctgcattccaatatccctttttttccttttaaaattagtattattttcaggatgatacatgactaacttttgggttgcttgggaccagGTTGAACAACTGCACAAAATATTTAAGTTGTGCGGCTCTCCATCTGAGGAATACTGGAGGAAGTATAGATTGCCAAATGCTACTATCTTTAAGCCACAGC
Basic information
species | Glycine max |
transcript | GLYMA06G17460.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G17460.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv17s0000g00620.t01 (Vitis vinifera), 3'ss of exon 3
atgtatctttatctgcattccaatatccctttttttccttttaaaattagtattattttcaggatgatacatgactaacttttgggttgcttgggacc--agGTTGAACAACTGCACAAAATATTTAAGTTGTGCGGCTCTCCATCTGAGGAATACTGGAGGAAGTATAGATTGCCAAATGCTACTATCTTTAAGCCACAGC
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-caaaaatcactctgtatttttatctgcttggtgatccttgtagatgttgtagc-tgtgaatcctaatttcattttttttattggattattttccttcttagGTTGAACAAGTGCATAAGATATTCAAGTTATGTGGCTCCCCATCTGAAGAATATTGGAAGAAATCCAAACTGCCACATGCAACAATCTTTAAGCCGCAAC
upper sequence: GLYMA06G17460.1 (Glycine max), 3'ss of exon 3
lower sequence: PP1S89_168V6.1 (Physcomitrella patens), 3'ss of exon 4
atgtatctttatctgcattccaatatccctttttttccttttaaaattagtattatt---ttcaggatgatacatgactaacttttgggttgcttgggac-cagGTTGAACAACTGCACAAAATATTTAAGTTGTGCGGCTCTCCATCTGAGGAATACTGGAGGAAGTATAGATTGCCAAATGCTACTATCTTTAAGCCACAGC
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-tttacctc---cggcgtttggtaacagattgtagggtttgtagggcccaagttgtggggttgaggccgtaattggaggggtttggcacattcttgtgatgtagGTGGAACAATTGCACAAGATCTTTAAGTTGTGCGGTTCCCCATCCGAGGAGTATTGGAAGAAGTCGAAATTGCCGCATGCGACGATATTCAAGCCTCAACMapped 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|11688300|gb|BF595976.1|BF595976EST: TTTTGGCAGAGCTGCTTGCTGGAAAGCCAATAATGCCTGGCCGAACAGAG GTTGAACAACTGCACAAAATATTTAAGTTGTGCGGCTCTCCATCTGAGGAA
genomic: TTTTGGCAGAGCTGCTTGCTGGAAAGCCAATAATGCCTGGCCGAACAGAGgtattgctct ... ttgggaccagGTTGAACAACTGCACAAAATATTTAAGTTGTGCGGCTCTCCATCTGAGGAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attagtattattttcaggatgatacatgactaacttttgggttgcttgggaccagGTTGAACAACTGCACAAAATATTTAAGTTGTGCGGCTCTCCATCTGAGGAATACTGGAGGAAGTATAGATTGCCAAATGCTACTATCTTTAAGCCACAGC
gactaac putative branch site (score: 1)
tattattttca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgtatctttatctgcattccaatatccctttttttccttttaaaattagtattattttcaggatgatacatgactaacttttgggttgcttgggaccagGTTGAACAACTGCACAAAATATTTAAGTTGTGCGGCTCTCCATCTGAGGAATACTGGAGGAAGTATAGATTGCCAAATGCTACTATCTTTAAGCCACAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA