Sequence
atgc intronic sequence ATGC exonic sequencegtactaatttttgcttttgtgttgcttatcttttcttgtcgcatgtacactttattcacaactacttttgattaaatagGCAAAGAAAGAACAAGCCACTGTTGTGGAGTGCAAAGGCCATGATGCTGCTTGGTTCCACAGCATTGATCATGCTCATGG
Basic information
species | Glycine max |
transcript | GLYMA19G03430.2 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G03430.2 (Glycine max), 3'ss of exon 1
lower sequence: AT3G29280.1 (Arabidopsis thaliana), 3'ss of exon 3
gtactaattt-----ttgcttttgtgttgcttatcttttcttgtcgca--------tgtacactttattcac-aactacttttgattaaatagGCAAAGAAAGAACAAGCCACTGTTGTGGAGTGCAAAGGCCATGATGCTGCTTGGTTCCACAGCATTGATCATGCTCATGG
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gtatgattttctcacttccttttgtgattcttaactcttaatttccaaaaccatgatattgagtttgttccttggtttcttttggtgaaaaagAGAAAGAAGGAACAAACAGTTGTAGTGGAGTGCAAAGGCCATGATGCTGCTCGAATTAATGATGTCGAGCATGCTCACGG
upper sequence: GLYMA19G03430.2 (Glycine max), 3'ss of exon 1
lower sequence: Vv14s0108g01480.t01 (Vitis vinifera), 3'ss of exon 3
---------------gtactaattt-ttgcttttgtgttgcttatcttttcttgtcgcatgtacactttattcacaactac--ttttgattaaatagGCAAAGAAAGAACAAGCCACTGTTGTGGAGTGCAAAGGCCATGATGCTGCTTGGTTCCACAGCATTGATCATGCTCATGG
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gtaggacctgtttgcattttaacttgctgttttccttttgtcttctttatttattccaatattta-tctacacatgattatcttttttatttttcagAGTAAGAGAGAACAAACTGTCATAGTAGAGTGCAGAGGCCATGATGCTGCTCGGTTCCACAGCATCGATCGTGCTCATGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttatcttttcttgtcgcatgtacactttattcacaactacttttgattaaatagGCAAAGAAAGAACAAGCCACTGTTGTGGAGTGCAAAGGCCATGATGCTGCTTGGTTCCACAGCATTGATCATGCTCATGG
ttttgat putative branch site (score: 4)
tacttttgattaaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactaatttttgcttttgtgttgcttatcttttcttgtcgcatgtacactttattcacaactacttttgattaaatagGCAAAGAAAGAACAAGCCACTGTTGTGGAGTGCAAAGGCCATGATGCTGCTTGGTTCCACAGCATTGATCATGCTCATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT