Sequence
atgc intronic sequence ATGC exonic sequence...tatgttgcaatcttattccaaacatattattatataaatttcatatgagatatttttgcatagatttttttgttagtgaactttggcattgtgtatgcagAGGCTAGTGATAAAAACCAAGAGCGTGGAGTTCATGCCCTTCTTCCTCTCACTCTTTGTGTTCCTCTGTGGCACATCTTGGTTCATCTACGGGCTACTAG
Basic information
species | Glycine max |
transcript | GLYMA13G09140.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G09140.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g65880.3 (Oryza sativa), 3'ss of exon 3
-----tatgttgcaatcttattccaaacatattattatataaatttcatatgagatatttttgcatagatttttttgttagtgaactttggcattgtgtatgcagAGGCTAGTGATAAAAACCAAGAGCGTGGAGTTCATGCCCTTCTTCCTCTCACTCTTTGTGTTCCTCTGTGGCACATCTTGGTTCATCTACGGGCTACTAG
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tgggaaatgttagaatg--acttacattgtgaaacggagggagtaataactaacaaaattaaccataatctgattcgctgatcaa--ttgactccg-gtgtgcagAGGCTGGTGATCAAGACGAAGAGCGTGGAGTTCATGCCGTTCCTGCTCTCCCTGTCCGTGTTCCTGTGCGGCACCTCCTGGTTCATCTACGGCCTGCTCG
upper sequence: GLYMA13G09140.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0001g15330.t01 (Vitis vinifera), 3'ss of exon 4
tatgttgcaatcttattccaaacatattat-tatataaatttcat--atgagatatttttgcatagatttttttgttagtgaactttggcattgtgta--tgcagAGGCTAGTGATAAAAACCAAGAGCGTGGAGTTCATGCCCTTCTTCCTCTCACTCTTTGTGTTCCTCTGTGGCACATCTTGGTTCATCTACGGGCTACTAG
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------gtaagctcagtttactccctttttctttagtagtctcttgaataagacagactggattggatggg---attaaactccctgattattatgtaattgcagAGAATGGTGATCAAAACAAAGAGTGTAGAGTACATGCCCTTCTTCTTATCACTGTTCGTGTTCCTCTGCGGTACTTCCTGGTTTGTCTTTGGCCTACTCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgagatatttttgcatagatttttttgttagtgaactttggcattgtgtatgcagAGGCTAGTGATAAAAACCAAGAGCGTGGAGTTCATGCCCTTCTTCCTCTCACTCTTTGTGTTCCTCTGTGGCACATCTTGGTTCATCTACGGGCTACTAG
tatttttgcatagatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatgttgcaatcttattccaaacatattattatataaatttcatatgagatatttttgcatagatttttttgttagtgaactttggcattgtgtatgcagAGGCTAGTGATAAAAACCAAGAGCGTGGAGTTCATGCCCTTCTTCCTCTCACTCTTTGTGTTCCTCTGTGGCACATCTTGGTTCATCTACGGGCTACTAG
- - -tgcaatc
- - - - - - - - -ccaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - -ttttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctttggc