Sequence
atgc intronic sequence ATGC exonic sequencegtgtagtgggcattagttctgagtcctgattcttgcatttgagctcaatatcattggatatatttactaaaatttagccagcactgtttcctatcgcagATGATAAAATGTAAGGTTGGAAGCATAAAGTCTGGGTGGCGTAGTGTATTTATGATTTTTACAGCTTCTGCAGATGATGAAATGGAATCAATTGTTGATA
Basic information
species | Glycine max |
transcript | GLYMA17G04890.1 |
intron # | 23 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G04890.1 (Glycine max), 3'ss of exon 23
lower sequence: GRMZM2G335287_T01 (Zea mays), 3'ss of exon 21
--gtgta-gtgggcattagttctgagtcct-----gattcttgcatttga---gctcaatatcattggatatatt-tacta-aaatttagccagcactgtttcctatcgcagATGATAAAATGTAAGGTTGGAAGCATAAAGTCTGGGTGGCGTAGTGTATTTATGATTTTTACAGCTTCTGCAGATGATGAAATGGAATCAATTGTTGATA
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gtatgtccatatgcatgaattttgacacatctataaatctatgaaatgtaatgatctggtgtttcttatcaaatgatgctacatataaaaactttgctggatgtacatgtagTTGATCAAGTCAAAAGTTGGCAGCATAAAGTCAGGGTGGCGTTGTGTATTCATGATATTTACTGCAGCGGCTGATGACGAGGATGAATCAATTGTTGAGA
upper sequence: GLYMA17G04890.1 (Glycine max), 3'ss of exon 23
lower sequence: AT3G43300.2 (Arabidopsis thaliana), 3'ss of exon 22
gtgtagtgggc---attagttctgagtcctgattcttgcatttgagctcaat----atcattggata-tattta-ctaaaattt----agccagcactgtttcctatcgcagATGATAAAATGTAAGGTTGGAAGCATAAAGTCTGGGTGGCGTAGTGTATTTATGATTTTTACAGCTTCTGCAGATGATGAAATGGAATCAATTGTTGATA
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--gttgcttgcttgatctattctatattctaaaattaatatgtttccttggtttttgttactcggtagtatgcagccattatttcagcagctaatcaatctttttattttagATGATAAAATCTAAAGTTGGAAGTATCAAATCGGGATGGAGGAGTGTTTTTATGATATTTACAGCAGCTGCAGATGACGAAGTTGAATCGATAGTTGAAA
upper sequence: GLYMA17G04890.1 (Glycine max), 3'ss of exon 23
lower sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 23
--------------------------------gtgtagtgggcattagttctgagtcctgattcttgcatttgagctcaatatcattggatatatttactaaaatttagccagcactgtttcctatcgcagATGATAAAATGTAAGGTTGGAAGCATAAAGTCTGGGTGGCGTAGTGTATTTATGATTTTTACAGCTTCTGCAGATGATGAAATGGAATCAATTGTTGATA
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gtatgtttatttgattttcctaactgttagtcatata-tctctattagttatttgccttaaa---tgtctctgcatttaatgataacagacagtttcatcaaagtt-aactgaagct-tatgttagcacagATGATAAAATCAAAGGTTGGAAGCATAAAATCTGGATGGCGTAGTGTGTTTATGATTTTTACAGCTGCTGCAGATGATGAATTGGAATCTATTGTTGAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaatatcattggatatatttactaaaatttagccagcactgtttcctatcgcagATGATAAAATGTAAGGTTGGAAGCATAAAGTCTGGGTGGCGTAGTGTATTTATGATTTTTACAGCTTCTGCAGATGATGAAATGGAATCAATTGTTGATA
tactaaa putative branch site (score: 1)
ctgtttcct putative PPT
atcattggatatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtagtgggcattagttctgagtcctgattcttgcatttgagctcaatatcattggatatatttactaaaatttagccagcactgtttcctatcgcagATGATAAAATGTAAGGTTGGAAGCATAAAGTCTGGGTGGCGTAGTGTATTTATGATTTTTACAGCTTCTGCAGATGATGAAATGGAATCAATTGTTGATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG