Sequence
atgc intronic sequence ATGC exonic sequence...agaaatggtatttaggaaacatgccattaaggtagataaactattttcttgctgaggcatatatgcttatttttgcttcctcttggatgaatttatacagTTGTCACGGGCTTGGAACAGCAGCCTTATCTGCCAAGGAACCTGAGGCTCTTCCATTTTGTGCTATTGCTTATGCTCTGACTGGAATATTTGGATCTATA
Basic information
species | Glycine max |
transcript | GLYMA09G34440.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G34440.1 (Glycine max), 3'ss of exon 6
lower sequence: AT1G32080.1 (Arabidopsis thaliana), 3'ss of exon 7
agaaatggtatt-taggaaacatgccattaaggtagataaactattttcttgctgaggcatatatgcttatttttgcttcctcttggatgaatttatacagTTGTCACGGGCTTGGAACAGCAGCCTTATCTGCCAAGGAACCTGAGGCTCTTCCATTTTGTGCTATTGCTTATGCTCTGACTGGAATATTTGGATCTATA
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-gtgactccattacaaaagatctttcacattttgaattaaaattatgcattaatg--ccattaggatcaaaagacatgacctttctattttttatggacagTGCTCATGGACTTGGAACAGCAGCTTTGTCGGCTAAGGAGCCAGAGGCTCTTCCCTTTTGTGCAATAGCTTATGCTCTTACCGGAATCTTCGGATCGTTA
upper sequence: GLYMA09G34440.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv08s0056g01690.t01 (Vitis vinifera), 3'ss of exon 7
---agaaatggtatttaggaaacat-gccattaaggtagataaactattttcttgc-tgaggcatatatgcttatttttgcttcctcttggatgaatttatacagTTGTCACGGGCTTGGAACAGCAGCCTTATCTGCCAAGGAACCTGAGGCTCTTCCATTTTGTGCTATTGCTTATGCTCTGACTGGAATATTTGGATCTATA
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cgaaatacaagtatctggagtctattattattataagatatgatgcgcatgttgggatgagtaaaatatgttgtttgttgtttgttgtttgatgt-----tacagTGCTCATGGACTGGGCACTGCGGCACTGTCAGCAAAGGAACCGGAGGCTCTCCCATTTTGTGCCATTGCTTATGCTCTCACTGGAATTTTCGGCTCACTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttgctgaggcatatatgcttatttttgcttcctcttggatgaatttatacagTTGTCACGGGCTTGGAACAGCAGCCTTATCTGCCAAGGAACCTGAGGCTCTTCCATTTTGTGCTATTGCTTATGCTCTGACTGGAATATTTGGATCTATA
atatatgcttattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaaatggtatttaggaaacatgccattaaggtagataaactattttcttgctgaggcatatatgcttatttttgcttcctcttggatgaatttatacagTTGTCACGGGCTTGGAACAGCAGCCTTATCTGCCAAGGAACCTGAGGCTCTTCCATTTTGTGCTATTGCTTATGCTCTGACTGGAATATTTGGATCTATA
- - - - - - - - - -catgcca
- - - - - - - - - - - - - - - - - gataaac
- - - - - - - - - - - - - - - - - - - - - - - - ttgctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatata