Sequence
atgc intronic sequence ATGC exonic sequencegtgacttcaaaaattatatatatatatatatatatatatatgctgtgaatcttttcttctaccttttacttgttctgatctgtcatttacatcttgtttcagGACAACTTCTGCATACATCACTGTAGCTTCTTTCCTTTTAGGTGCCCTTTGTTCGGGTGTTGCTGGATATGTAGGGATGTGGGTGTCAGTTCGTGCCAAT
Basic information
species | Glycine max |
transcript | GLYMA08G24120.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G24120.2 (Glycine max), 3'ss of exon 4
lower sequence: AT1G16780.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgacttcaaaaattatatatatatatatatatatatatatgctgt-gaatcttttcttctaccttttac-ttgttctgat-----ctgtcatttacatctt---gtttcagGACAACTTCTGCATACATCACTGTAGCTTCTTTCCTTTTAGGTGCCCTTTGTTCGGGTGTTGCTGGATATGTAGGGATGTGGGTGTCAGTTCGTGCCAAT
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---------------------------gtgatcatacatcttctacagaatcttttcttttatcttttgtgttgttataaataaaactcaaatgtataactttgtgcttcagGACAATGTCTGCATACATTACTGTTGCTGCATTTCTTTTGGGTGCGCTATGTTCAGGTATTGCTGGATATGTTGGAATGTGGGTGTCAGTTCGTGCTAAT
upper sequence: GLYMA08G24120.2 (Glycine max), 3'ss of exon 4
lower sequence: AT1G78920.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgacttcaaaaattatatatatatatatatatatatatatgctgtgaatcttttcttctacctt-ttacttgttctgatctgtcat-ttac-atcttgtttcagGACAACTTCTGCATACATCACTGTAGCTTCTTTCCTTTTAGGTGCCCTTTGTTCGGGTGTTGCTGGATATGTAGGGATGTGGGTGTCAGTTCGTGCCAAT
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-----------------gtgctgatacatgattacattcacaagatttattttatcttttgaattgttgtgaatgaagcttagccatattactattttgctgcagGGCGATGTCTGCTTATATTACTGTTGCTGCATTTCTTTTGGGGGCTCTATGCTCAGGTATTGCTGGATATGTTGGAATGTGGGTGTCAGTTCGTGCTAATMapped 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|193707476|gb|FK642750.1|FK642750EST: TATTTGTTTCGCAGTACAAATCCTCAACAGGAATCTTCTGGCCTGGGAAG GACAACTTCTGCATACATCACTGTAGCTTCTTTCCTTTTAGGTGCCCTTTG
genomic: TATTTGTTTCGCAGTACAAATCCTCAACAGGAATCTTCTGGCCTGGGAAGgtgacttcaa ... cttgtttcagGACAACTTCTGCATACATCACTGTAGCTTCTTTCCTTTTAGGTGCCCTTTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatcttttcttctaccttttacttgttctgatctgtcatttacatcttgtttcagGACAACTTCTGCATACATCACTGTAGCTTCTTTCCTTTTAGGTGCCCTTTGTTCGGGTGTTGCTGGATATGTAGGGATGTGGGTGTCAGTTCGTGCCAAT
ttctgat putative branch site (score: 3)
tcttgtttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgacttcaaaaattatatatatatatatatatatatatatgctgtgaatcttttcttctaccttttacttgttctgatctgtcatttacatcttgtttcagGACAACTTCTGCATACATCACTGTAGCTTCTTTCCTTTTAGGTGCCCTTTGTTCGGGTGTTGCTGGATATGTAGGGATGTGGGTGTCAGTTCGTGCCAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA