Sequence
atgc intronic sequence ATGC exonic sequence...cttgaagatttttcagtatatctttttttacccccctttcctgagtgtactgtatttcctttgggtgcaatagttaattctaaagcttcatgtttaacagGTTATTGCAAATTTCAGTGCCACATGGTGTGGTCCTTGTAAGATGATTGCACCATATTATTGCGAGTTGTCCGAGAAATACCCATCTATCATGTTCTTAT
Basic information
species | Glycine max |
transcript | GLYMA03G00410.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G00410.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G08710.1 (Arabidopsis thaliana), 3'ss of exon 3
cttgaagatttttcagtatatctttttttacccccctttcctgagtgtactgtatttcctttgggtgcaatagttaattctaaagcttcatgtttaacagGTTATTGCAAATTTCAGTGCCACATGGTGTGGTCCTTGTAAGATGATTGCACCATATTATTGCGAGTTGTCCGAGAAATACCCATCTATCATGTTCTTAT
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----gtaatttttc--cctttttgatatttctcttctctcatgta-gtgttgtgtttgtttctcaatctcatgctaatatcttctcttctcttgaaacagGTGGTTGCAAACTTCAGTGCGACATGGTGTGGTCCGTGTAAAATTGTGGCACCATTTTTCATCGAGCTCTCAGAGAAACATTCTTCTCTTATGTTCCTTC
upper sequence: GLYMA03G00410.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv08s0040g00020.t01 (Vitis vinifera), 3'ss of exon 3
--cttgaagattt----ttcagtatatctttttttacccccctttcctgagtgtactgtatttcctttgggtgcaatagttaattctaaagcttcatgtttaacagGTTATTGCAAATTTCAGTGCCACATGGTGTGGTCCTTGTAAGATGATTGCACCATATTATTGCGAGTTGTCCGAGAAATACCCATCTATCATGTTCTTAT
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tgcttgaggaattgctcttcattgcaatttgatttatctggtgagttcagttgtacaatatttttccaattttcactaatt------ggagctgcatattcgacagGTGATTGCAAATTTTAGTGCAACATGGTGTGGTCCTTGTAAAATGATTGCACCATTCTACTGCGAACTATCTGAGGCACACCCTTCTCTGATGTTTCTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtactgtatttcctttgggtgcaatagttaattctaaagcttcatgtttaacagGTTATTGCAAATTTCAGTGCCACATGGTGTGGTCCTTGTAAGATGATTGCACCATATTATTGCGAGTTGTCCGAGAAATACCCATCTATCATGTTCTTAT
ttctaaa putative branch site (score: 2)
aatagttaattctaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttgaagatttttcagtatatctttttttacccccctttcctgagtgtactgtatttcctttgggtgcaatagttaattctaaagcttcatgtttaacagGTTATTGCAAATTTCAGTGCCACATGGTGTGGTCCTTGTAAGATGATTGCACCATATTATTGCGAGTTGTCCGAGAAATACCCATCTATCATGTTCTTAT
- - - - - - - - - - - - - - - cccccct
- - - - - - - - - - - - - - - - - - - - -tgagtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtgcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agcttca