Sequence
atgc intronic sequence ATGC exonic sequence...gcataatttaatctaattatattatgttacaagaaacatacaatggtttgctctcatatgaattgaatatctgctgctcatgcaaattatttaattgcagGCTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
Basic information
species | Glycine max |
transcript | GLYMA20G34790.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G34790.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os12g40550.1 (Oryza sativa), 3'ss of exon 10
------------------------------------------------gcataatt--taatct---aattatattatgttacaagaaacatacaatggtttgctc-tcatatgaattgaatatctgctg-ctcatgcaa---attatttaat-tgcagGCTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
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gtcaagtactataggccccaacagggttttccacctacaaaccaaataccctggctggcaatctctgaaacatgttatttgctttgtgtctaattatgttctttttgtggggtaacatgtttaccaactaacacgtacaactgcttctttgttctgcagAATATCACCAATGGGTATGATCTTCATTCCATGTTACAAAG
upper sequence: GLYMA20G34790.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv05s0020g04900.t01 (Vitis vinifera), 3'ss of exon 10
gcataatttaatctaattatattatgttacaagaaacatacaatggtttgctctca----tatgaattg--aatatctgctgctcatgcaa-attat-ttaattgcagGCTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
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----aatgtggtctta----aagatttcagatggtactgaaaatagtttgctcttggttttcttaactgcaaatagctgctgatcttgtaatgtcatattccttgcagAATATCTCCAATGGGTATGATATTCATTCCATGTTACAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttgctctcatatgaattgaatatctgctgctcatgcaaattatttaattgcagGCTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
atttaat putative branch site (score: 4)
atgcaaattatttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcataatttaatctaattatattatgttacaagaaacatacaatggtttgctctcatatgaattgaatatctgctgctcatgcaaattatttaattgcagGCTGTCTCCAATGGGCATGATTTTCATTCCATGTTACAAAG
- - - - - - - - - - - - - - - - - -acataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ctgctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tcatgca