Sequence
atgc intronic sequence ATGC exonic sequence...gaaactgctctttttaagtaaaaaatgtgtatatttcagtggaagctgtgtgaacctgcacatttggcttatatattttttcttcctttgtggcatacagGTGTACTATGTGTATGGCTTTATGCTGCTAGTCTTTGTGATTCTTATCATCGTTACCATTTGTGTGACAATTGTGGGGACATACTTTTTGTTAAATGCTG
Basic information
species | Glycine max |
transcript | GLYMA08G13370.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G13370.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os02g34690.1 (Oryza sativa), 3'ss of exon 10
gaaactgctctttttaagtaaaaaatgtgtatatttcagtggaagctgtgt-------gaacctgcacatttgg--cttatatattttttcttcctttgtggcatacagGTGTACTATGTGTATGGCTTTATGCTGCTAGTCTTTGTGATTCTTATCATCGTTACCATTTGTGTGACAATTGTGGGGACATACTTTTTGTTAAATGCTG
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------------gtaaaacaggcaacactaattttcccatacaggcttcattactaaggagccctgagagttgagacttatgcatccttcctgatcatctattg-acagGTGTACTATGTATATGGGTTCATGTTGCTAGTCTTTTTGATCCTCATAATTGTCACCATCTGTGTAACAATCGTTGGTACATATTTCCTGCTGAATGCGG
upper sequence: GLYMA08G13370.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv18s0041g00680.t01 (Vitis vinifera), 3'ss of exon 10
gaaactgctctttttaagtaaaaaatgtgtatatttcagtggaagctgtgtgaacctgcacatttggcttat-atattttttctt--cctttgtggcatacagGTGTACTATGTGTATGGCTTTATGCTGCTAGTCTTTGTGATTCTTATCATCGTTACCATTTGTGTGACAATTGTGGGGACATACTTTTTGTTAAATGCTG
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taattctctgttcttttattggagatgc---catttaaatttatgctgactgtgtttgtggcttaatcttattatgctgctttgtgatttttgtgctcaacagGTATATTATGTATATGGCTTTATGTTGCTTGTTTTCATGATTCTTATGATTGTTACAGTCTGTGTAACAATTGTGGGGACATATTTCTTGTTGAATGCTG
upper sequence: GLYMA08G13370.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv12s0035g00280.t01 (Vitis vinifera), 3'ss of exon 10
gaaactgctctttttaagtaaaaaatgtgtatatttcagtggaagctgtgtgaacctgcacatttggcttatatattttttcttcc-tttgtggcatacagGTGTACTATGTGTATGGCTTTATGCTGCTAGTCTTTGTGATTCTTATCATCGTTACCATTTGTGTGACAATTGTGGGGACATACTTTTTGTTAAATGCTG
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-ctctctctctctatttttgagaaattcggactattgtttgacaggagttcaaattgtttgcagtggatgataaacattttttgctgtttgtgctgggcagGTGTATTATGTCTATGGCTTTATGCTACTGGTTTTCCTGATTCTCATAATTGTCACTGTTTGTGTGACAATAGTGGGAACATACTTCTTGCTAAATGCTGMapped 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|192295891|gb|FG992657.1|FG992657EST: GCATATTCATTGAAATGTATTTTGTATTCACTTCCTTCTGGAATTACAAG GTGTACTATGTGTATGGCTTTATGCTGCTAGTCTTTGTGATTCTTATCATC
genomic: GCATATTCATTGAAATGTATTTTGTATTCACTTCCTTCTGGAATTACAAGgtgaatcaca ... tggcatacagGTGTACTATGTGTATGGCTTTATGCTGCTAGTCTTTGTGATTCTTATCATC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctgtgtgaacctgcacatttggcttatatattttttcttcctttgtggcatacagGTGTACTATGTGTATGGCTTTATGCTGCTAGTCTTTGTGATTCTTATCATCGTTACCATTTGTGTGACAATTGTGGGGACATACTTTTTGTTAAATGCTG
tattttttcttccttt CT-rich tract
ttatatattttttctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaactgctctttttaagtaaaaaatgtgtatatttcagtggaagctgtgtgaacctgcacatttggcttatatattttttcttcctttgtggcatacagGTGTACTATGTGTATGGCTTTATGCTGCTAGTCTTTGTGATTCTTATCATCGTTACCATTTGTGTGACAATTGTGGGGACATACTTTTTGTTAAATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - ctgctct
- - - - - - - - - -aaaaaat
- - - - - - - - - - - - - - - - - ttcagtg
- - - - - - - - - - - - - - - - - - - - -gaagctg
- - - - - - - - - - - - - - - - - - - - - - - - - - -acctgca