Sequence
atgc intronic sequence ATGC exonic sequencegttcgtaatttatatcaatatattggaatttggaacttgttagttttttcttgtttcctattattttatgtagtttgttcttttcatttataaagtactgattctatttcttgtattaatttatgccttgacatgatgtattattgtctatgcatgttaatgtaacagGTTGCTGCCATGTTTAAGATTGGTAATAGCAAGGAACTCCCAACAATCCCAGATCATCTCTCCAGTGAAGGAAAGGATTTTGTTAGGAAATGCCTACAAC
Basic information
species | Glycine max |
transcript | GLYMA16G30030.2 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G30030.2 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os04g47240.2 (Oryza sativa), 3'ss of exon 9
gttcgtaatttatatcaatatattggaatttggaacttgttagttttttcttgtttcctattattttatgtagtttgttcttttcatttataaagtactgattctatttcttgtattaatttatgccttgacatgatgtattattgtctatgcatgttaatgtaacagGTTGCTGCCATGTTTAAGATTGGTAATAGCAAGGAACTCCCAACAATCCCAGATCATCTCTCCAGTGAAGGAAAGGATTTTGTTAGGAAATGCCTACAAC
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----------------------------------------------------------ttgaaatgtaaagacttccttcttttgactcgtaatg----agacttggaagtttcaccgaagca-actttggcatgaacatttcccctcttttctt-----tcctgcagATTGCTGCAATGTTCAAGATCGGAAATAGCAAGGAACTTCCACCAATACCAGATCACCTTTCAGAGCCAGGCAAGGACTTCATCAGAAAGTGCCTGCAAC
upper sequence: GLYMA16G30030.2 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G175504_T01 (Zea mays), 3'ss of exon 8
gttcgtaatttatatcaatatattggaatttggaacttgttagttttttcttgtttcctattattttatgtagtttgttcttttcatttataaagtactgattctatttcttgtattaatttatgccttgacatgat----gtattattgtctatgcatgttaatgtaacagGTTGCTGCCATGTTTAAGATTGGTAATAGCAAGGAACTCCCAACAATCCCAGATCATCTCTCCAGTGAAGGAAAGGATTTTGTTAGGAAATGCCTACAAC
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--------------------------------------------------------------------tgtacctt----tatgaagttattaaatattggacttcttttaattgttaatttaatcataaatgcaattcaggtatgaatgtttcccttttatttgccaacagATTGCTGCAGTGTTTAAGATTGGGAATAGCAAGGAACTTCCACCAATACCGGATTATCTTTCGGAGCACTGCAGGGACTTCATTAGGAAGTGTCTGCAAC
upper sequence: GLYMA16G30030.2 (Glycine max), 3'ss of exon 9
lower sequence: Vv16s0050g00770.t01 (Vitis vinifera), 3'ss of exon 8
gttcgtaatttatatcaatatattggaatttggaacttgttagttttttcttgtttcctattattttatgtagtttgttcttttcatttataaagtactgattctatttcttgtattaatttatgccttgacatgatgtattattgtctatgcatgttaatgtaacagGTTGCTGCCATGTTTAAGATTGGTAATAGCAAGGAACTCCCAACAATCCCAGATCATCTCTCCAGTGAAGGAAAGGATTTTGTTAGGAAATGCCTACAAC
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------------------------------------------------------------aaatctaaggtag---aattcttacattccaatcgtgcaggt--tatttgatgtttc--tttgttctttcttctaattatgtgatgttcacatgttctggtctaa-agGTTGCTGCAATGTTCAAGATTGGGAATAGTAAGGACCTCCCAGCAATTCCTGATCACCTTTCAGATGAAGGTAAGGATTTTGTAAGGCAGTGCTTGCAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattaatttatgccttgacatgatgtattattgtctatgcatgttaatgtaacagGTTGCTGCCATGTTTAAGATTGGTAATAGCAAGGAACTCCCAACAATCCCAGATCATCTCTCCAGTGAAGGAAAGGATTTTGTTAGGAAATGCCTACAAC
atgtattatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcgtaatttatatcaatatattggaatttggaacttgttagttttttcttgtttcctattattttatgtagtttgttcttttcatttataaagtactgattctatttcttgtattaatttatgccttgacatgatgtattattgtctatgcatgttaatgtaacagGTTGCTGCCATGTTTAAGATTGGTAATAGCAAGGAACTCCCAACAATCCCAGATCATCTCTCCAGTGAAGGAAAGGATTTTGTTAGGAAATGCCTACAAC
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- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA