Sequence
atgc intronic sequence ATGC exonic sequence...aattactgttttgtgtctctaattcttgagtccaacactatgccaacagtacatctcaaatttgatttcgcattgacaaacaaggtattttttgtgccagAGATGATCATTCTGAGTCGCTCCACAAATGGCATGTTTATGTGACTGGTCATAGTTTGGGTGGTGCACTGGCAACCTTGCTTGCTCTTGAACTTTCATCT
Basic information
species | Glycine max |
transcript | GLYMA10G26510.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G26510.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os04g43030.1 (Oryza sativa), 3'ss of exon 11
--aattactgttttgtgtctctaattcttgagtccaacactatgccaacagt-acatctcaaatttgatttcgcattgacaaacaaggtattttttgtgccagAGATGATCATTCTGAGTCGCTCCACAAATGGCATGTTTATGTGACTGGTCATAGTTTGGGTGGTGCACTGGCAACCTTGCTTGCTCTTGAACTTTCATCT
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gtaagtatttctataatgaaacagtttctaccacaaaca-tatatctcctgccaagtattaagtaatctttctttgtttctattcatttttccactgcagGGATGAAGAAGACGGAGAAAACATACCTAAGTGGCATGTCTATGTGACTGGACATAGTTTAGGTGGAGCACTAGCAACCCTTCTTGCTCTTGAACTTTCA---
upper sequence: GLYMA10G26510.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G377641_T01 (Zea mays), 3'ss of exon 11
----aattactgttttgtgtctcta-attcttgagtccaacactatgccaacagtacatctcaaatttgatttcgcattgacaaacaaggtatttt-ttgtgccagAGATGATCATTCTGAGTCGCTCCACAAATGGCATGTTTATGTGACTGGTCATAGTTTGGGTGGTGCACTGGCAACCTTGCTTGCTCTTGAACTTTCATCT
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tttacacatttattgtgtgtgtgtatatatatatatatatatcttcaccaagtaactatctaaaactttattg---acaaagcatttaattattccactgcagTGATGAAGAAGATGCAGAAAACATACCTAGGTGGCATGTTTATGTGACTGGACACAGTTTAGGTGGAGCACTAGCGACTCTTCTTGCTCTTGAACTTTCA---
upper sequence: GLYMA10G26510.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G13550.1 (Arabidopsis thaliana), 3'ss of exon 11
aattactgttttgtgtctctaattcttgagtccaacactatgccaacagtacatctcaaatttgatttcgcattgacaaacaaggtatt-ttttgtgccagAGATGATCATTCTGAGTCGCTCCACAAATGGCATGTTTATGTGACTGGTCATAGTTTGGGTGGTGCACTGGCAACCTTGCTTGCTCTTGAACTTTCATCT
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cagtacaatatagtgattgaaattttacgtcttcgaggtgtgctaaaatcttacatcaattctaataa-acatgctctctctctctctcaccccttggcagAGACGATGTTACTGAGCGTGAAGATAAATGGCATGTTTATGTGACTGGTCATAGCTTGGGTGGCGCATTAGCTACACTCTTGGCTCTCGAACTTTCGTCC
upper sequence: GLYMA10G26510.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0077g00480.t01 (Vitis vinifera), 3'ss of exon 5
aattactgttttgtgtctctaattcttgagtccaacactatgccaacagtacatctcaaatttgatttcgcattgacaaacaaggtattttttgtgcc---------agAGATGATCATTCTGAGTCGCTCCACAAATGGCATGTTTATGTGACTGGTCATAGTTTGGGTGGTGCACTGGCAACCTTGCTTGCTCTTGAACTTTCATCT
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------atttatatggcaaaaagaattctatttg-cgctatatttgtg--tcatgaaatgtgtaatttgttagtcaaaaagaagctgatctttcttcccttgggggcagAGATGATGGTAGGGAGATGCAGCTCAAATGGCATGTGTATGTGACTGGTCATAGTTTAGGTGGTGCATTAGCCACCCTTCTTGCGCTTGAGCTTTCATCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acagtacatctcaaatttgatttcgcattgacaaacaaggtattttttgtgccagAGATGATCATTCTGAGTCGCTCCACAAATGGCATGTTTATGTGACTGGTCATAGTTTGGGTGGTGCACTGGCAACCTTGCTTGCTCTTGAACTTTCATCT
cattgac putative branch site (score: 3)
tatttttt putative PPT
aaatttgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aattactgttttgtgtctctaattcttgagtccaacactatgccaacagtacatctcaaatttgatttcgcattgacaaacaaggtattttttgtgccagAGATGATCATTCTGAGTCGCTCCACAAATGGCATGTTTATGTGACTGGTCATAGTTTGGGTGGTGCACTGGCAACCTTGCTTGCTCTTGAACTTTCATCT
- - - tgttttg
- - - - - - - - - - - - - - - tccaaca
- - - - - - - - - - - - - - - - - - -ctatgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acaaaca