Sequence
atgc intronic sequence ATGC exonic sequencegttagctgactacaattctgtctgtatacatttccatcaatttaaagttttatctgatagatttcttgctgaatcttatatgatttttttcatccagCTTCGATCCAGTCGAAACTTCTGTATTGATATTGTTTTGTTGATTATAATTTTGGGAATTGCTGCCTACTTATACAA
Basic information
species | Glycine max |
transcript | GLYMA13G20220.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G20220.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G09740.1 (Arabidopsis thaliana), 3'ss of exon 7
gttagctgactaca-attctgtctgtatacatttccatcaatttaaagttttatctgatagatttcttgctgaatcttatatgatttttttcatccagCTTCGATCCAGTCGAAACTTCTGTATTGATATTGTTTTGTTGATTATAATTTTGGGAATTGCTGCCTACTTATACAA
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gtaatttaagtttggaatctatttct-tggactctcagccacataggtctgttcttgata--cctaatataaaagc----attgtcttttgtttacagCTGAGATCTAGCCGGAACTTCTGTATCGATATTGTTTTGTTGTGTATTGTTCTGGGTATCGCTGCATACTTATACAA
upper sequence: GLYMA13G20220.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv08s0040g02130.t01 (Vitis vinifera), 3'ss of exon 7
gttagctgactacaattctgtctgtatacatttccatcaatttaaagttttatctgatagatttct-tgctgaatcttatatgatttttt-----tcatccagCTTCGATCCAGTCGAAACTTCTGTATTGATATTGTTTTGTTGATTATAATTTTGGGAATTGCTGCCTACTTATACAA
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gtaatttgactatt-ttaagcttagatttccatttatcctctcctgtgctcatctg-tagattactctactagatctaacaaagggttttggtattgcttcagCTGAGGTCCAGTCGAAATTTCTGCATTGATATTATTTTGTTGTGTATAATTCTGGGAATTGCTGCCTATCTATATAAMapped 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|308222721|gb|HO760631.1|HO760631EST: CCTCTGACCTTAAGAATACAAATGTTAGACTTAAAGACACTGTGAACCAG CTTCGATCCAGTCGAAACTTCTGTATTGATATTGTTTTGTTGATTATAATT
genomic: CCTCTGACCTTAAGAATACAAATGTTAGACTTAAAGACACTGTGAACCAGgttagctgac ... tttcatccagCTTCGATCCAGTCGAAACTTCTGTATTGATATTGTTTTGTTGATTATAATT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaagttttatctgatagatttcttgctgaatcttatatgatttttttcatccagCTTCGATCCAGTCGAAACTTCTGTATTGATATTGTTTTGTTGATTATAATTTTGGGAATTGCTGCCTACTTATACAA
atctgat putative branch site (score: 4)
tttttttcatcc putative PPT
aatcttatatgatttt 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
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gttagctgactacaattctgtctgtatacatttccatcaatttaaagttttatctgatagatttcttgctgaatcttatatgatttttttcatccagCTTCGATCCAGTCGAAACTTCTGTATTGATATTGTTTTGTTGATTATAATTTTGGGAATTGCTGCCTACTTATACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC