Sequence
atgc intronic sequence ATGC exonic sequencegtaagacaatatttatattcatagctgttaccatctccctatattttgacacatgctgataatttttcatcttagGCTAAATGCTTGGAAACTGGCGAGCCAGTGGCCATTAAGAAGGTTTTACTGGACAAAAGATATAAGAATCGTGAGCTACAGTTAATGCGCTTGATGGATC
Basic information
species | Glycine max |
transcript | GLYMA05G29200.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G29200.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv10s0003g01480.t01 (Vitis vinifera), 3'ss of exon 3
gtaagacaatatttat-attca---tagctgttaccatctccctatattttga---cacatgctgataattt-ttcatcttagGCTAAATGCTTGGAAACTGGCGAGCCAGTGGCCATTAAGAAGGTTTTACTGGACAAAAGATATAAGAATCGTGAGCTACAGTTAATGCGCTTGATGGATC
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gtacatggatattaattatgcaaactatttgtgtcaatatcattttctttatatttcatgtcttggttcctcgcttctgttagGCAAAATGCTTGGAAACTGGAGAGACTGTGGCCATAAAGAAGGTTTTGCAGGACAGAAGATATAAGAATCGTGAGCTGCAGTTAATGCGCACGATGGATC
upper sequence: GLYMA05G29200.1 (Glycine max), 3'ss of exon 2
lower sequence: PP1S60_85V6.1 (Physcomitrella patens), 3'ss of exon 4
---------------------gtaagacaat-atttatattcat----agctgttaccatctccctatattttgacacatgctgataatttttcatcttagGCTAAATGCTTGGAAACTGGCGAGCCAGTGGCCATTAAGAAGGTTTTACTGGACAAAAGATATAAGAATCGTGAGCTACAGTTAATGCGCTTGATGGATC
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tgcattgtagagaagaattttatgggttatttgtttacgctagtctcaagctggtagaagtgcaccgttgtctaa-gtatcgtggtgacctgtgtgatcagGCAAAATGCATCGAAACTGGGGAAACAGTGGCCATCAAGAAGGTGTTGCAAGACAAACGATACAAGAATCGTGAGTTGCAGATCATGCGACTGTTGGATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atagctgttaccatctccctatattttgacacatgctgataatttttcatcttagGCTAAATGCTTGGAAACTGGCGAGCCAGTGGCCATTAAGAAGGTTTTACTGGACAAAAGATATAAGAATCGTGAGCTACAGTTAATGCGCTTGATGGATC
tgctgat putative branch site (score: 3)
tttttcatctt putative PPT
ataatttttcatctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagacaatatttatattcatagctgttaccatctccctatattttgacacatgctgataatttttcatcttagGCTAAATGCTTGGAAACTGGCGAGCCAGTGGCCATTAAGAAGGTTTTACTGGACAAAAGATATAAGAATCGTGAGCTACAGTTAATGCGCTTGATGGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA