Sequence
atgc intronic sequence ATGC exonic sequencegtgtgtgccaaatttcttatttcatagatatgagatgtcatgcattttcttaacaaatgcatttgattaatctcacacatttactctagtttcgggatggcgacagTCCATATTACAATATTGATTTGAAGGAGATACATGTTGCGGGGAAGCGACTGCATTTAAACCCAAAGGTTTTTGATGGAAAACATGGAACTGTCTTGGAT
Basic information
species | Glycine max |
transcript | GLYMA01G39800.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G39800.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G090715_T01 (Zea mays), 3'ss of exon 3
gtgtgtgccaaatttcttatttcatagatatgagatgtcatgcattttcttaacaaatgcatttgattaatctcacacatttactctagtttcgggatggcgacagTCCATATTACAATATTGATTTGAAGGAGATACATGTTGCGGGGAAGCGACTGCATTTAAACCCAAAGGTTTTTGATGGAAAACATGGAACTGTCTTGGAT
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gtat-tgtataatttcctatatgata---atcgatccttat-tatttttgtggtacatattttt-attag---------------ctaactttaaactggcaacagTCCATATTACAACATTGAGTTAAAGGAAATACATGTTGCTGGAAAGGCACTGCGGGTAGATTCAAGGATCTTTGACAGCAAGCATGGGACTGTTTTGGAT
upper sequence: GLYMA01G39800.1 (Glycine max), 3'ss of exon 6
lower sequence: AT3G50050.1 (Arabidopsis thaliana), 3'ss of exon 3
gtgtgtgcc-----aaatttcttatttc-atagatatgagatgtcatgcattttcttaacaaatgcatttgattaatctcacacatttactctagtttcgggatggcgacagTCCATATTACAATATTGATTTGAAGGAGATACATGTTGCGGGGAAGCGACTGCATTTAAACCCAAAGGTTTTTGATGGAAAACATGGAACTGTCTTGGAT
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gtatgtttccaagggaatggctttttctgattggtgaatgggatcttgtataatcctaacaaatacgtttaatacctttcacacatttactctagtttcgggatggcgacagTCCATATTACAATATAGATTTGACGGGGATACGTGTTGCTGGGAAGCAGTTGTCTCTTCATTCGAGAGTCTTTGACGGGGAACATGGCGCCGTACTAGAC
upper sequence: GLYMA01G39800.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv07s0129g00600.t01 (Vitis vinifera), 3'ss of exon 3
gtgtg-tgccaaatttcttatttcatagatatgagatgtcatgcattttcttaacaaatgcatttgattaatctcacacatttactctagtttcgggatggcgacagTCCATATTACAATATTGATTTGAAGGAGATACATGTTGCGGGGAAGCGACTGCATTTAAACCCAAAGGTTTTTGATGGAAAACATGGAACTGTCTTGGAT
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gtttggtttgaaatattttatcttgtagatataaaacactacattcttccctaatgtataaatttgatacatatggcacatttactctagtctcgggatgggaacagTGCATATTACAATATTGACCTGAAGGAGATACACATTGCTGGGAAGCAGTTGCCTATAAACCCAATGGTTTTTGATGGAAAATATGGGACAATCCTGGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacaaatgcatttgattaatctcacacatttactctagtttcgggatggcgacagTCCATATTACAATATTGATTTGAAGGAGATACATGTTGCGGGGAAGCGACTGCATTTAAACCCAAAGGTTTTTGATGGAAAACATGGAACTGTCTTGGAT
atttgattaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgtgccaaatttcttatttcatagatatgagatgtcatgcattttcttaacaaatgcatttgattaatctcacacatttactctagtttcgggatggcgacagTCCATATTACAATATTGATTTGAAGGAGATACATGTTGCGGGGAAGCGACTGCATTTAAACCCAAAGGTTTTTGATGGAAAACATGGAACTGTCTTGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA