Sequence
atgc intronic sequence ATGC exonic sequencegtagtgccaatgtcttttttcccattttcttttgattagttgtaaaaaatgatgatgtaagccttggttattcacagGTATTTGGCGCCAGAATATGCTCAAAGTGGTCAAATTACTGAAAAAGCTGACGTGTACTCGTTTGGGATAGTATTACTGGAGCTTGTCACAGGACGGAAA
Basic information
species | Glycine max |
transcript | GLYMA08G03340.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G03340.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv11s0016g02430.t01 (Vitis vinifera), 3'ss of exon 6
-------gtagtgccaatgtcttttttcccatt--ttcttttgattagttgtaaaaaatgatgatgtaagccttggttattcacagGTATTTGGCGCCAGAATATGCTCAAAGTGGTCAAATTACTGAAAAAGCTGACGTGTACTCGTTTGGGATAGTATTACTGGAGCTTGTCACAGGACGGAAA
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gtaaacaagaaggacaagcttttggcttccatcaatactagctaaaaataatggcaagtcaaaccattaatcttacttttgtacagGTACCTGTCTCCAGAATATGCTCAAAGTGGCCAAATCACAGAAAAAGCTGATGTATACTCCTTTGGAGTAGTGTTGGTGGAGCTCATTACAGGACGGAAA
upper sequence: GLYMA08G03340.2 (Glycine max), 3'ss of exon 5
lower sequence: EFJ05818 (Selaginella moellendorffii), 3'ss of exon 7
gtagtgccaatgtcttttttcccattttcttttgattagttgtaaaaaatgatgatgtaagccttggttattcacagGTATTTGGCGCCAGAATATGCTCAAAGTGGTCAAATTACTGAAAAAGCTGACGTGTACTCGTTTGGGATAGTATTACTGGAGCTTGTCACAGGACGGAAA
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---------gtaaggttttgaaagctttacgtgaaacaaaacttag---ctatggcatgaactctgctc--tgtcagGTATTTAGCACCTGAATATACACAAAGTGGTCAGATCACAGAAAAGGCAGACGTTTACTCGTTTGGAATAGTGCTCTTGGAGCTTGTAACTGGCCGCAAG
upper sequence: GLYMA08G03340.2 (Glycine max), 3'ss of exon 5
lower sequence: EFJ34463 (Selaginella moellendorffii), 3'ss of exon 7
gtagtgccaatgtcttttttcccattttcttttgattagttgtaaaaaatgatgatgtaagccttggttattcacagGTATTTGGCGCCAGAATATGCTCAAAGTGGTCAAATTACTGAAAAAGCTGACGTGTACTCGTTTGGGATAGTATTACTGGAGCTTGTCACAGGACGGAAA
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------gtaagg----ttttaaaatcgttacgtga--aacaaaacttagctatggtatggactctgctc--tgtcagGTATTTAGCACCTGAATATACTCAAAGTGGTCAGATCACAGAAAAGGCAGACGTTTACTCGTTTGGAATAGTGCTCTTGGAGCTTGTAACTGGCCGCAAGMapped 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|26269266|gb|CA820329.1|CA820329EST: CAGCCAGATGGAGACATGGGTGTGGAAACCAGGGTCATAGGAACATTTGG GTATTTGGCGCCAGAATATGCTCAAAGTGGTCAAATTACTGAAAAAGCTGA
genomic: CAGCCAGATGGAGACATGGGTGTGGAAACCAGGGTCATAGGAACATTTGGgtagtgccaa ... ttattcacagGTATTTGGCGCCAGAATATGCTCAAAGTGGTCAAATTACTGAAAAAGCTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattttcttttgattagttgtaaaaaatgatgatgtaagccttggttattcacagGTATTTGGCGCCAGAATATGCTCAAAGTGGTCAAATTACTGAAAAAGCTGACGTGTACTCGTTTGGGATAGTATTACTGGAGCTTGTCACAGGACGGAAA
ttttgat putative branch site (score: 4)
ttttgattagttgtaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtgccaatgtcttttttcccattttcttttgattagttgtaaaaaatgatgatgtaagccttggttattcacagGTATTTGGCGCCAGAATATGCTCAAAGTGGTCAAATTACTGAAAAAGCTGACGTGTACTCGTTTGGGATAGTATTACTGGAGCTTGTCACAGGACGGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT