Sequence
atgc intronic sequence ATGC exonic sequence...aggaaacatgtatatgaaagattttatattcaaattttctttcttttattttttttaacaattattttgtatttatggataaagttaaataattttgcagGATTCACTTGGTGGTAACAGCAGAACTGTTATGATAG
Basic information
species | Glycine max |
transcript | GLYMA14G09390.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G09390.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv18s0001g10090.t01 (Vitis vinifera), 3'ss of exon 6
aggaaacatgtatatgaaagattttatattcaaattttctttcttttatttttttta-acaattattttgtatttatggataaagttaaataattttgcagGATTCACTTGGTGGTAACAGCAGAACTGTTATGATAG
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-catcaccaccctttttttccttttgtatatgtattttaatatttttacatttcatatatatttttaatatttttaaatctatgttcatgcattttggcagGATTCACTTGGTGGTAACAGCAGAACTGTCATGATAG
upper sequence: GLYMA14G09390.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ26093 (Selaginella moellendorffii), 3'ss of exon 6
aggaaacatgtatatgaaagattttatattcaaattttctttcttttattttttttaacaattattttgtatttatggataaagttaaataattttgcagGATTCACTTGGTGGTAACAGCAGAACTGTTATGATAG
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-----------------------------------------------gtactgttgcgtaggttttttttatt-gcgttttgacaagaaaacctgtgcagGACTCCCTTGGTGGCAACAGCAGGACTGTTATGATAG
upper sequence: GLYMA14G09390.1 (Glycine max), 3'ss of exon 6
lower sequence: EFJ10856 (Selaginella moellendorffii), 3'ss of exon 6
aggaaacatgtatatgaaagattttatattcaaattttctttcttttattttttttaacaattattttgtatttatggataaagttaaataattttgcagGATTCACTTGGTGGTAACAGCAGAACTGTTATGATAG
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-----------------------------------------------gtactgttgcgtaggtttttttttattgcgttttgacaagaaaacctgtgcagGACTCCCTTGGTGGCAACAGCAGGACTGTTATGATAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttattttttttaacaattattttgtatttatggataaagttaaataattttgcagGATTCACTTGGTGGTAACAGCAGAACTGTTATGATAG
ttttaac putative branch site (score: 2)
ttttttaacaattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aggaaacatgtatatgaaagattttatattcaaattttctttcttttattttttttaacaattattttgtatttatggataaagttaaataattttgcagGATTCACTTGGTGGTAACAGCAGAACTGTTATGATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - catgtat