Sequence
atgc intronic sequence ATGC exonic sequencegtatggcattggaggctttagtgttacatatatcataaatgtattcatgaaaagcacatatataagttcatgcaaaatgagttacacattataataaggtttagtttggagtattgtctaacaaatatctttgcatcttagCGTGTGGCTTGCTTATTGAGAAAAGTTGTACAAGAGATTGAACGACGTATATCAACTCAAGCAGCACATCTAAAAACT
Basic information
species | Glycine max |
transcript | GLYMA13G33390.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 2
lower sequence: AT1G73860.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatggcattggaggctttagtgttacatatatcataaatgtattcatgaaaagcacatatataagttcatgcaaaatgagttacacattataataaggtttagtttggagtattgtctaacaaatatctttgcatcttagCGTGTGGCTTGCTTATTGAGAAAAGTTGTACAAGAGATTGAACGACGTATATCAACTCAAGCAGCACATCTAAAAACT
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----------------------------------gtacttgaatgc-caacaattattaagatcatcacgtctataagataccttcctttgtgcttttactt--cttgggaaatgttttgacaaa-agctacaatgaacagCGTGTGGCATGCCTGTTAAGAAAAGTCGTGCAGGAGATTGAGCGGCGTATATCAACTCAAGCTGAACATCTAAGAACG
upper sequence: GLYMA13G33390.1 (Glycine max), 3'ss of exon 2
lower sequence: Vv17s0000g03700.t01 (Vitis vinifera), 3'ss of exon 5
gtatggcattggaggctttagtgttacatatatcataaatgtattcatgaaaagcacatatataagttcatgcaaaatgagttacacattataataaggtttagtttggagtattgtctaacaaatatctttgcatctt-agCGTGTGGCTTGCTTATTGAGAAAAGTTGTACAAGAGATTGAACGACGTATATCAACTCAAGCAGCACATCTAAAAACT
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gtatggcaatgagagggcaactggtgt-taaatta-aggcatatatat-atatatatatatatattgataatataaatgcatttttaatgctaa-aaaacttatctgaggatgctttttattttttgtttttttttcctcagCGTGTGGCATGTCTATTGAGAAAAGTTGTGCAGGAAATTGAGCGGCGAATATCAACTCAAGCAGAACACTTAAGAACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattataataaggtttagtttggagtattgtctaacaaatatctttgcatcttagCGTGTGGCTTGCTTATTGAGAAAAGTTGTACAAGAGATTGAACGACGTATATCAACTCAAGCAGCACATCTAAAAACT
gtctaac putative branch site (score: 2)
tatcttt putative PPT
taacaaatatcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggcattggaggctttagtgttacatatatcataaatgtattcatgaaaagcacatatataagttcatgcaaaatgagttacacattataataaggtttagtttggagtattgtctaacaaatatctttgcatcttagCGTGTGGCTTGCTTATTGAGAAAAGTTGTACAAGAGATTGAACGACGTATATCAACTCAAGCAGCACATCTAAAAACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA