Sequence
atgc intronic sequence ATGC exonic sequence...gagtgtgtgtgtaattcacctttgtaagttaaatcaaatcaatgaactaaaaggttcttatattgtgctctcaccctgtgtgtatatgtttttctttcagGAATGTTCTTCACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGC
Basic information
species | Glycine max |
transcript | GLYMA06G46230.2 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G46230.2 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os02g06840.2 (Oryza sativa), 3'ss of exon 10
gagtgtgtgtgtaattcacctttgtaagttaaatcaaatcaatgaac-taaaaggttcttat-attgtgc--tctcaccctgtgtgtatatgtttttctttcagGAATGTTCTTCACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGC
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----gtgag-ataacacctgttttcatatttacctgtgtgcacatgcacgccttgttctcattgttgcacaaactaatgctgattcctctaatccaattgctagACATGTCCTCCACAAGTATATAAATGAGGATGTTTCATTAGGAAGTTGGTTTATTGGATTAGATGTCGAGCATATCGACGACCGGAGACTTTGTTGTGGT
upper sequence: GLYMA06G46230.2 (Glycine max), 3'ss of exon 9
lower sequence: AT1G05170.2 (Arabidopsis thaliana), 3'ss of exon 9
gagtgtgtgtgtaattcacctttgtaagttaaatcaaatcaatgaactaaaaggttcttatattgtgctctcaccctgtgtgtatatgtttttctttcagGAATGTTCTTCACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGC
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----------gtaagatgaagatg-agattacattgtatca--tagctcatttgttaactcatgtaactcttcgttcttatacatgt-taaatgtttcagGCATGTTCTTCACAAGTATGCGAACGAAGATGTTTCGCTAGGAGCTTGGTTTATCGGGATTGATGTTAAACACATTGATGATAGAAGATTATGCTGCGGA
upper sequence: GLYMA06G46230.2 (Glycine max), 3'ss of exon 9
lower sequence: Vv12s0059g00640.t01 (Vitis vinifera), 3'ss of exon 9
gagtgtgtgtgtaatt--cacctttgtaagttaaatca--aatcaatgaactaaaaggtt-------cttatattgtgctct--caccctgtgtg-------tatatgtttttctttcagGAATGTTCTTCACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGC
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--gtaagttttcacttaccattttcaaggggtaaaaaaggaatcagcaaattcttggattgatgtatttcataatatcctcttccactttttatggttattttgtacatgattattgcagGCATGTTCTTCACAAGTATGCTAATGAGGACGTTTCACTGGGTTCTTGGTTTATTGGTCTTGATGCGGAACATATTGATGATCGGAGATTATGTTGTGGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actaaaaggttcttatattgtgctctcaccctgtgtgtatatgtttttctttcagGAATGTTCTTCACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGC
tatgtttttctttc CT-rich tract
tatatgtttttcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gagtgtgtgtgtaattcacctttgtaagttaaatcaaatcaatgaactaaaaggttcttatattgtgctctcaccctgtgtgtatatgtttttctttcagGAATGTTCTTCACAAGTATGCCAACGAGGATGTGTCACTAGGATCCTGGTTTATTGGACTTGATGTGGAGCATATAGATGATCGAAGACTTTGTTGTGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA