Sequence
atgc intronic sequence ATGC exonic sequencegttttttacaaacttaaagttcttgtaatttatttttttattgattgaataccctgacattattattctcttggctttcttttcttccacatcccagGACAATCCATCAGACAAGGATATCAACCAGGGAACATTGGTAGTTTTCAATTTGGATCCATCTGTTTCAAATGAAGACCTGCGTCAAATATTTGGGGCTT
Basic information
species | Glycine max |
transcript | GLYMA09G11630.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G11630.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0003g02670.t01 (Vitis vinifera), 3'ss of exon 5
gttttttacaaacttaaagtt-cttgtaatttatttttttattgattgaataccctgacattattattctcttggctttcttttcttccacatcccagGACAATCCATCAGACAAGGATATCAACCAGGGAACATTGGTAGTTTTCAATTTGGATCCATCTGTTTCAAATGAAGACCTGCGTCAAATATTTGGGGCTT
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gttcaaaattgacgttcagccacttgtaagtcatttttg-actttcaaaccatctttatactcatgttttttcc-ttttcttgcctaccac----cagGATAACCCATCTGACAAGGATGTTAATCAAGGAACTCTGGTAGTTTTTAATTTGGATCCATCAGTTTCAAATGATGATCTCCGCCAAATATTTGGGGCTT
upper sequence: GLYMA09G11630.1 (Glycine max), 3'ss of exon 3
lower sequence: EFJ16044 (Selaginella moellendorffii), 3'ss of exon 2
gttttttacaaacttaaagttcttgtaatttatttttttattgattgaataccctgacattattattctcttggctttcttttcttccacatcccagGACAATCCATCAGACAAGGATATCAACCAGGGAACATTGGTAGTTTTCAATTTGGATCCATCTGTTTCAAATGAAGACCTGCGTCAAATATTTGGGGCTT
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---------------------------gtttgcttggttttcatatgcataagtccgatttgcgcttctcact-cacagaggtcgctcgtttaccagGACAATCCCTCCGACAAGGATATCAACCAAGGCACCCTTGTCGTCTTCAATCTTGATGCATCAGTCTCTGGTGAAGATCTTCGTAAAATATTTGGCCAGTMapped 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|209722250|gb|BW675070.1|BW675070EST: ACAAACCTCTACGGCGCAGGAAACTAGACATTCATTTCTCAATACCAAAG GACAATCCATCAGACAAGGATATCAACCAGGGAACATTGGTAGTTTTCAAT
genomic: ACAAACCTCTACGGCGCAGGAAACTAGACATTCATTTCTCAATACCAAAGgttttttaca ... cacatcccagGACAATCCATCAGACAAGGATATCAACCAGGGAACATTGGTAGTTTTCAAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattgaataccctgacattattattctcttggctttcttttcttccacatcccagGACAATCCATCAGACAAGGATATCAACCAGGGAACATTGGTAGTTTTCAATTTGGATCCATCTGTTTCAAATGAAGACCTGCGTCAAATATTTGGGGCTT
ccctgac putative branch site (score: 3)
ttctcttggctttctt putative PPT
attattattctctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttttacaaacttaaagttcttgtaatttatttttttattgattgaataccctgacattattattctcttggctttcttttcttccacatcccagGACAATCCATCAGACAAGGATATCAACCAGGGAACATTGGTAGTTTTCAATTTGGATCCATCTGTTTCAAATGAAGACCTGCGTCAAATATTTGGGGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA