Sequence
atgc intronic sequence ATGC exonic sequence...attattccttaagttttgaatggattttatggttgcaaatattcttttagaattatatatgacaaagtttcagcactaatgatttttgtcttaagtgcagATTCAAGCTGCATTTCGCACAGATGAAATTCGAAGGACTCCTCCTACCCCACAAGATGAGATGAGGGCAGGAATGAGCTACTTTCATGAGACAATTTGGA
Basic information
species | Glycine max |
transcript | GLYMA12G33820.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA12G33820.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os01g55350.1 (Oryza sativa), 3'ss of exon 5
--------------------------------attattccttaagttttgaatggatttt----atggttgcaaatattctt------ttagaattatatatgacaaagtttcagcactaatgatttttgtcttaagtgcagATTCAAGCTGCATTTCGCACAGATGAAATTCGAAGGACTCCTCCTACCCCACAAGATGAGATGAGGGCAGGAATGAGCTACTTTCATGAGACAATTTGGA
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gtgatttcctttttgtaggagcttggattatgagtggcacaagaccactatagtgattatttcaacaatcagcaagatttgtcatacatcaaaaatatatttatatgattctaattccttatatttttt--cttatgttcagATCCAAGCCGCCTTTAGAACAGATGAAATTCGGCGAGCACCTCCTACACCACAGGATGAAATGCGTGCTGGAATGAGTTATTTTCATGAGACAATATGGA
upper sequence: GLYMA12G33820.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os08g27840.1 (Oryza sativa), 3'ss of exon 3
--------------------------------------------------------------------------------------attattccttaagttttgaatggattttatggttgcaaatattcttttagaattatatatgacaaagtttcagca---ctaat--gatttttgtcttaagtg-cagATTCAAGCTGCATTTCGCACAGATGAAATTCGAAGGACTCCTCCTACCCCACAAGATGAGATGAGGGCAGGAATGAGCTACTTTCATGAGACAATTTGGA
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gtaagataatcaagttaatcactgactcatttatagtcttgattttttttttcaaattgtatgtgccttttcgattatttatagaaattataaattactttcagcatgatgctcaacatgccagattttgtgctccaactaaatttattaatgcattaataaggtgaatcagaacatgttcttatttttcagATTCAAGCAGCCTTTAGAACTGATGAGATCCGAAGAACCCAGCCAACTCCTCAAGATGAAATGAGGGCTGGTATGAGTTACTTTCATGAGACAATCTGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttagaattatatatgacaaagtttcagcactaatgatttttgtcttaagtgcagATTCAAGCTGCATTTCGCACAGATGAAATTCGAAGGACTCCTCCTACCCCACAAGATGAGATGAGGGCAGGAATGAGCTACTTTCATGAGACAATTTGGA
cactaat putative branch site (score: 2)
tttttgtctt putative PPT
aattatatatgacaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attattccttaagttttgaatggattttatggttgcaaatattcttttagaattatatatgacaaagtttcagcactaatgatttttgtcttaagtgcagATTCAAGCTGCATTTCGCACAGATGAAATTCGAAGGACTCCTCCTACCCCACAAGATGAGATGAGGGCAGGAATGAGCTACTTTCATGAGACAATTTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - tgaatgg
- - - - - - - - - - - - - - -tggttgc