Sequence
atgc intronic sequence ATGC exonic sequencegtaagactagcctttctgaaccaaattacttgttttaagattgcaattaatgcttgcttctgatgcttttgtctaatggttttaaataactgcagAAGCACATAAGAGAGGAGTTACTCGTTGCTGGTAAGTTTGATGTGTGTGTTACTAGTTTTGAAATGGTAATCAAGGAGAAGTCTGCTTTACGGCGATTTA
Basic information
species | Glycine max |
transcript | GLYMA07G38050.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 6
gtaagactagcctttctgaaccaaattacttgttttaagattgcaattaatgcttgcttctgatgcttttgtctaatggttttaaataactgcagAAGCACATAAGAGAGGAGTTACTCGTTGCTGGTAAGTTTGATGTGTGTGTTACTAGTTTTGAAATGGTAATCAAGGAGAAGTCTGCTTTACGGCGATTTA
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-----gttagt-ttacttagcc---tccgctctccaaccattcttatgaacaacttctgatgttgtactgaacattttgcattctgtttggtcagAACCATATAAGGGAGAACCTATTGCAGCCAGGAAAATTTGATGTGTGTGTCACTAGTTTTGAAATGGCAATCAAAGAAAAAACTACACTGAAGCGTTTCA
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os05g05780.1 (Oryza sativa), 3'ss of exon 6
gtaagactagcctttctgaaccaaattacttgttttaagattgcaattaatgcttgcttctgatgct-tttgtctaatg-gttttaaataactg--cagAAGCACATAAGAGAGGAGTTACTCGTTGCTGGTAAGTTTGATGTGTGTGTTACTAGTTTTGAAATGGTAATCAAGGAGAAGTCTGCTTTACGGCGATTTA
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----------------------gtaatccccatgttatctctgtcattcatgtgaacttcttgtggtatattgctaacatatttgtcatacttggtcagAACCATATCCGGGAAAATTTGTTAGTCCCAGGGAAGTTTGACGTCTGTGTTACTAGTTTTGAAATGGCAATTAAAGAAAAAACTGCATTGAAGCGTTTCA
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 3
gtaagactagcctttctgaaccaaattacttgttttaagattgcaattaatgcttgc-ttctgatgcttttgtctaatggttttaaataactgcagAAGCACATAAGAGAGGAGTTACTCGTTGCTGGTAAGTTTGATGTGTGTGTTACTAGTTTTGAAATGGTAATCAAGGAGAAGTCTGCTTTACGGCGATTTA
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---------gttagtctcaactctaaagtctaatctctaatgacttatggagcctatattgccatgttactgaccttctcttctgtgt-----cagAACCATATAAGGGACAATTTGCTGCAACCTGGGAAATTTGATGTGTGTGTGACTAGTTTTGAAATGGCAATCAAAGAAAAATCTGCGTTGAGGCGCTTCA
upper sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 6
lower sequence: AC235535.1_FGT001 (Zea mays), 3'ss of exon 6
gtaagactagcctttctgaaccaaattacttgttttaagattgcaattaatgcttgcttctgatgcttttgtctaatggttttaaataactg-----cagAAGCACATAAGAGAGGAGTTACTCGTTGCTGGTAAGTTTGATGTGTGTGTTACTAGTTTTGAAATGGTAATCAAGGAGAAGTCTGCTTTACGGCGATTTA
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--------------gttggtctcaagtctattctttaatcccttatggaatttttactgcc-atgttactgaatactgatctcttattcttctgtgccagAACCATATAAGGGACGATTTGCTACAGCCTGGAAAATTTGATGTGTGCGTGACTAGTTTTGAAATGGCAATCAAAGAAAAATCTGCGTTGAGGCGCTTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcaattaatgcttgcttctgatgcttttgtctaatggttttaaataactgcagAAGCACATAAGAGAGGAGTTACTCGTTGCTGGTAAGTTTGATGTGTGTGTTACTAGTTTTGAAATGGTAATCAAGGAGAAGTCTGCTTTACGGCGATTTA
aaataac putative branch site (score: 2)
taatggttttaaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagactagcctttctgaaccaaattacttgttttaagattgcaattaatgcttgcttctgatgcttttgtctaatggttttaaataactgcagAAGCACATAAGAGAGGAGTTACTCGTTGCTGGTAAGTTTGATGTGTGTGTTACTAGTTTTGAAATGGTAATCAAGGAGAAGTCTGCTTTACGGCGATTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT