Sequence
atgc intronic sequence ATGC exonic sequence...tattttctcatggattacttgaaaatatttcttgacatcagttagtgaactgaagtcttagcctacattatcaaaagcttgttccttgttgatctttcagGAAGGTGATAAGATTGCACTGGCTAAATCAACTGGATTAGACCAGAAGCAAATTAACAACTGGTTTATTAATCAGAGAAAGCGCTACTGGAAACCATCTG
Basic information
species | Glycine max |
transcript | GLYMA18G20460.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G20460.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv01s0127g00210.t01 (Vitis vinifera), 3'ss of exon 4
-tattttctcatggattacttgaaaatatttcttgacatcagttagtgaactgaagtcttagcctacattatcaaaagcttgttccttgt-tgatctttcagGAAGGTGATAAGATTGCACTGGCTAAATCAACTGGATTAGACCAGAAGCAAATTAACAACTGGTTTATTAATCAGAGAAAGCGCTACTGGAAACCATCTG
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gtaagtctgcactttgtgttttcatttcctttatagggtgggaatgcatactattttctgagtctt--tgaccataccgctttttcttatataataatccagGAAGCTGATAAAATTGCACTTGCTGAAACAACGGGTCTGGACCAGAAGCAAATTAACAATTGGTTTATAAATCAACGAAAGCGGCACTGGAAACCATCAG
upper sequence: GLYMA18G20460.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ07541 (Selaginella moellendorffii), 3'ss of exon 5
tattttctcatggattacttgaaaatatttcttgacatcagttagtgaactgaagtcttagcctacattatcaaaagcttgttccttgttgatctttcagGAAGGTGATAAGATTGCACTGGCTAAATCAACTGGATTAGACCAGAAGCAAATTAACAACTGGTTTATTAATCAGAGAAAGCGCTACTGGAAACCATCTG
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------------------------gtatgttgtgatagttttcattgaatt------------tatattcttagttgtttg------gctggt--ttcagGAACAGGAGAAAGCTAACCTCGCAACTGATACTGGACTCGACCAGAAGCAAATTAACAACTGGTTTATCAACCAGAGAAAGCGTCATTGGAATCCTTCAG
upper sequence: GLYMA18G20460.1 (Glycine max), 3'ss of exon 1
lower sequence: EFJ10744 (Selaginella moellendorffii), 3'ss of exon 5
tattttctcatggattacttgaaaatatttcttgacatcagttagtgaactgaagtcttagcctacattatcaaaagcttgttccttgttgatctttcagGAAGGTGATAAGATTGCACTGGCTAAATCAACTGGATTAGACCAGAAGCAAATTAACAACTGGTTTATTAATCAGAGAAAGCGCTACTGGAAACCATCTG
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------------------------gtatgttgtgatagttttcattgaatt------------tatattcttagttgtttg------gctggt--ttcagGAACAGGAGAAAGCTAACCTCGCAACTGATACTGGACTCGACCAGAAGCAAATTAACAATTGGTTTATCAACCAGAGAAAGCGTCATTGGAATCCTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaactgaagtcttagcctacattatcaaaagcttgttccttgttgatctttcagGAAGGTGATAAGATTGCACTGGCTAAATCAACTGGATTAGACCAGAAGCAAATTAACAACTGGTTTATTAATCAGAGAAAGCGCTACTGGAAACCATCTG
tgttgat putative branch site (score: 4)
tctttc CT-rich tract
attatcaaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tattttctcatggattacttgaaaatatttcttgacatcagttagtgaactgaagtcttagcctacattatcaaaagcttgttccttgttgatctttcagGAAGGTGATAAGATTGCACTGGCTAAATCAACTGGATTAGACCAGAAGCAAATTAACAACTGGTTTATTAATCAGAGAAAGCGCTACTGGAAACCATCTG
- - - - catggat
- - - - - - - - - - - - - - - cttgaca
- - - - - - - - - - - - - - - - - - - - gttagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctacat