Sequence
atgc intronic sequence ATGC exonic sequencegtaaactttatttcgtataatgtattatgtccttaagttatttgtggtatttcgtttatcaaattgacgtgaggagttgttcagGATCGTTTGGAAGCAGCAAATGCTCTGAAGAAACAAATGTGGGCAGAAGCACAAGTAGATAAAGTTCGTCTAAAAGATGATACTTTCAGTAAATCTGACT
Basic information
species | Glycine max |
transcript | GLYMA07G32180.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G32180.1 (Glycine max), 3'ss of exon 14
lower sequence: LOC_Os05g48820.1 (Oryza sativa), 3'ss of exon 13
gtaaactttatttcgtataatgtattatgtccttaagttatttgtggtatttcgtttatcaaattgacgtgaggagttgttcagGATCGTTTGGAAGCAGCAAATGCTCTGAAGAAACAAATGTGGGCAGAAGCACAAGTAGATAAAGTTCGTCTAAAAGATGATACTTTCAGTAAATCTGACT
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gtaa---ttatcttgcatgatct-tgatatctt---gtcattt------tcccatcatctgaaccaa---aaggatctttgcagGAACGGCTGGAGGCAGCAAGTGCTTTGAAAAAGCAAATGTGGGCAGAAGCACAACTTGATAAAAGACGTTCGAGGGAGGAATTTTCTAGTAAAATGCAAT
upper sequence: GLYMA07G32180.1 (Glycine max), 3'ss of exon 14
lower sequence: GRMZM2G122750_T01 (Zea mays), 3'ss of exon 13
gtaaactttatttcgtataatgtattatgtccttaagttatttgtggtatttcgtttatcaaattgacgtgaggagttgttcagGATCGTTTGGAAGCAGCAAATGCTCTGAAGAAACAAATGTGGGCAGAAGCACAAGTAGATAAAGTTCGTCTAAAAGATGATACTTTCAGTAAATCTGACT
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gtaatgtttatattgtg-attttgttatcttgctatttt-cctattgaacatcatctgaacaacagACTTTA---------CAGGAACGCCTAGAAGCAGCAAGTGCTTTGAAAAAACAAATGTGGGCTGAGGCACAACTTGATAAGAGGCGTTCAAGGGATGACTTTACTAGTA---------
upper sequence: GLYMA07G32180.1 (Glycine max), 3'ss of exon 14
lower sequence: AT1G28420.1 (Arabidopsis thaliana), 3'ss of exon 13
-------gtaaactttatttcgtataatgtattatgtccttaagttatttgtggtatttcg--tttatcaaat-tgacgtga---ggagttgttca--gGATCGTTTGGAAGCAGCAAATGCTCTGAAGAAACAAATGTGGGCAGAAGCACAAGTAGATAAAGTTCGTCTAAAAGATGATACTTTCAGTAAATCTGACT-
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gtaaagtctgggttttcttttatcagctttcctgttgaacagagtagaaattgaccttttgagtctattatttgttatctgattgaaatttattcacagGATCGTATGGAAGCAGCAAATGCTCTTAAAAAGCAAATGTGGGCTGAAGCACAGTTAGATAACAGCTGTATGAGAGATG-TACTTAAGCTTGATCTTCAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tccttaagttatttgtggtatttcgtttatcaaattgacgtgaggagttgttcagGATCGTTTGGAAGCAGCAAATGCTCTGAAGAAACAAATGTGGGCAGAAGCACAAGTAGATAAAGTTCGTCTAAAAGATGATACTTTCAGTAAATCTGACT
aattgac putative branch site (score: 3)
tttatcaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaactttatttcgtataatgtattatgtccttaagttatttgtggtatttcgtttatcaaattgacgtgaggagttgttcagGATCGTTTGGAAGCAGCAAATGCTCTGAAGAAACAAATGTGGGCAGAAGCACAAGTAGATAAAGTTCGTCTAAAAGATGATACTTTCAGTAAATCTGACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG