Sequence
atgc intronic sequence ATGC exonic sequencegtgacatcataaattatacatgctgtgaatcttctcttgtaccttttacttgttctgatctgtcatttacatcctgttttagGACAACTTCTGCATACATCACCGTAGCTTCTTTCCTTTTAGGCGCCCTTTGTTCCGGTGTTGCTGGATATGTAGGGATGTGGGTGTCAGTTCGTGCCAAT
Basic information
species | Glycine max |
transcript | GLYMA07G00350.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G00350.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgacatcataaattatacatgctgtgaatcttctcttgtaccttttac-ttgttctgat-----ctgtcatttacatcct---gttttagGACAACTTCTGCATACATCACCGTAGCTTCTTTCCTTTTAGGCGCCCTTTGTTCCGGTGTTGCTGGATATGTAGGGATGTGGGTGTCAGTTCGTGCCAAT
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--gtgatcatacatcttctaca----gaatcttttcttttatcttttgtgttgttataaataaaactcaaatgtataactttgtgcttcagGACAATGTCTGCATACATTACTGTTGCTGCATTTCTTTTGGGTGCGCTATGTTCAGGTATTGCTGGATATGTTGGAATGTGGGTGTCAGTTCGTGCTAAT
upper sequence: GLYMA07G00350.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G78920.1 (Arabidopsis thaliana), 3'ss of exon 4
-----gtgacatcataaattatacatgctgtgaatcttctcttgtaccttttacttgttctgatctgtcat-ttac-atcctgttttagGACAACTTCTGCATACATCACCGTAGCTTCTTTCCTTTTAGGCGCCCTTTGTTCCGGTGTTGCTGGATATGTAGGGATGTGGGTGTCAGTTCGTGCCAAT
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gtgctgatacatgattacattcacaagatttattttatcttttgaat-tgttgtgaatgaagcttagccatattactattttgctgcagGGCGATGTCTGCTTATATTACTGTTGCTGCATTTCTTTTGGGGGCTCTATGCTCAGGTATTGCTGGATATGTTGGAATGTGGGTGTCAGTTCGTGCTAATMapped 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|213597643|gb|DB962153.1|DB962153EST: TATTTGTTTCGCAGTACAACTCCTCAACAGGAATCTTCTGGCCTGGGAAG GGACA-CTTCTGCATACATCACCGTAGCT
genomic: TATTTGTTTCGCAGTACAACTCCTCAACAGGAATCTTCTGGCCTGGGAAGgtgacatcat ... cctgttttagG-ACAACTTCTGCATACATCACCGTAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatcttctcttgtaccttttacttgttctgatctgtcatttacatcctgttttagGACAACTTCTGCATACATCACCGTAGCTTCTTTCCTTTTAGGCGCCCTTTGTTCCGGTGTTGCTGGATATGTAGGGATGTGGGTGTCAGTTCGTGCCAAT
ttctgat putative branch site (score: 3)
tcctgtttt putative PPT
ttttactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgacatcataaattatacatgctgtgaatcttctcttgtaccttttacttgttctgatctgtcatttacatcctgttttagGACAACTTCTGCATACATCACCGTAGCTTCTTTCCTTTTAGGCGCCCTTTGTTCCGGTGTTGCTGGATATGTAGGGATGTGGGTGTCAGTTCGTGCCAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA