Sequence
atgc intronic sequence ATGC exonic sequencegttctttgcaaatttttctccgaaccttttgggaaataatatttgtggtggaaatgtcaagatcactgtggataaatgacatgtgttttgtgcatacagGCTTCAGTATTTGTACAGTCTCATGTTCGGGCACATGTAGAATTGATGTGGCTGCTAAGTTCCACAACACCAATTGGTTGGCTGAACAAAATGATACAAT
Basic information
species | Glycine max |
transcript | GLYMA06G09240.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G09240.2 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os01g54020.2 (Oryza sativa), 3'ss of exon 5
gttctttgcaaatttttctccgaaccttttgggaaataatatttgtggtggaaatgtcaagatcactgtggataaatgacat-gtgttttgtgcatacagGCTTCAGTATTTGTACAGTCTCATGTTCGGGCACATGTAGAATTGATGTGGCTGCTAAGTTCCACAACACCAATTGGTTGGCTGAACAAAATGATACAAT------------------
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gtctgcttcacatattt------acattatatga--tgatgtttgt--tgcaggtgcccttgtggagctgaatgttttatgttgttttgtgtctttacaggcttctatatttgtacagTCTCATGTCCGTGCTCATGTTGAGTTGATGTGGCTTCTGAGTTCTTCTACTCCTATTGGTTGGCTCAACAGAATGATCCAATTCAAAGAGAAGTCACGCA
upper sequence: GLYMA06G09240.2 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os01g54020.1 (Oryza sativa), 3'ss of exon 5
gttctttgcaaatttttctccgaaccttttgggaaataatatttgtggtggaaatgtcaagatcactgtggataaatgacat-gtgttttgtgcatacagGCTTCAGTATTTGTACAGTCTCATGTTCGGGCACATGTAGAATTGATGTGGCTGCTAAGTTCCACAACACCAATTGGTTGGCTGAACAAAATGATACAAT
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gtctgcttcacatattt------acattatatga--tgatgtttgt--tgcaggtgcccttgtggagctgaatgttttatgttgttttgtgtctttacagGCTTCTATATTTGTACAGTCTCATGTCCGTGCTCATGTTGAGTTGATGTGGCTTCTGAGTTCTTCTACTCCTATTGGTTGGCTCAACAGAATGATCCAAT
upper sequence: GLYMA06G09240.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv04s0008g00200.t01 (Vitis vinifera), 3'ss of exon 5
gttctttgcaaatttttctccgaaccttttgggaaataatatttgtggtggaaatgtcaagatcactgtggataaatgacatgtgt----tttgtgcatacagGCTTCAGTATTTGTACAGTCTCATGTTCGGGCACATGTAGAATTGATGTGGCTGCTAAGTTCCACAACACCAATTGGTTGGCTGAACAAAATGATACAAT
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-------------gtttagtttaactatt-------cattctttattgtg----tgccaaggtttatatgcatgcttgttatgactcagatctgtatgggcagGCCTCTGTCTTTGTTCAGTCTCATGTTCGTGCCCATTCAGAATTGATGTGGTTACTGAGTTCTGCTACTCCAATTGGTTGGTTGAACAAAATGATTCAGTMapped 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|193361959|gb|FK325595.1|FK325595EST: CAAGGTCAACTGCTGCTATTTACCTAGCATGTGGAGTGGATCCTTCAAAG GCTTCAGTATTTGTACAGTCTCATGTTCGGGCACATGTAGAATTGATGTGG
genomic: CAAGGTCAACTGCTGCTATTTACCTAGCATGTGGAGTGGATCCTTCAAAGgttctttgca ... gtgcatacagGCTTCAGTATTTGTACAGTCTCATGTTCGGGCACATGTAGAATTGATGTGG
EST:
gi|193340093|gb|FK306300.1|FK306300EST: CAAGGTCAACTGCTGCTATTTACCTAGCATGTGGAGTGGATCCTTCAAAG GCTTCAGTATTTGTACAGTCTCATGTTCGGGCACATGTAGAATTGATGTGG
genomic: CAAGGTCAACTGCTGCTATTTACCTAGCATGTGGAGTGGATCCTTCAAAGgttctttgca ... gtgcatacagGCTTCAGTATTTGTACAGTCTCATGTTCGGGCACATGTAGAATTGATGTGG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtggtggaaatgtcaagatcactgtggataaatgacatgtgttttgtgcatacagGCTTCAGTATTTGTACAGTCTCATGTTCGGGCACATGTAGAATTGATGTGGCTGCTAAGTTCCACAACACCAATTGGTTGGCTGAACAAAATGATACAAT
ataaatga 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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttctttgcaaatttttctccgaaccttttgggaaataatatttgtggtggaaatgtcaagatcactgtggataaatgacatgtgttttgtgcatacagGCTTCAGTATTTGTACAGTCTCATGTTCGGGCACATGTAGAATTGATGTGGCTGCTAAGTTCCACAACACCAATTGGTTGGCTGAACAAAATGATACAAT
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