Sequence
atgc intronic sequence ATGC exonic sequencegtgggttgccctttttgtttgttattaaatgtattaggaaatcgtggttagtgtttgctgattgaaagttcatttgtagTGCCAAACAGGTCGGATTTCTTTTAAGCTTTATGATTGGAATCCTGCAGAATTTCCTAGAAGGCTACGACACCAA
Basic information
species | Glycine max |
transcript | GLYMA15G10620.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G10620.1 (Glycine max), 3'ss of exon 3
lower sequence: GRMZM2G109354_T01 (Zea mays), 3'ss of exon 3
-------------------------------------------------------gtg-ggttgccctttttgtttgtt-attaaatgtattaggaaatcgtggttagtgtttgctg----attgaaagttcatttgtagTGCCAAACAGGTCGGATTTCTTTTAAGCTTTATGATTGGAATCCTGCAGAATTTCCTAGAAGGCTACGACACCAA
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gtaggaccttttctttgttctcatgaagttgtttatttttataatatgtacgattttgcagttgcaatctgtttaggttgatggaattttttatcccttccactctaatggttgtagtaatgttatactgtccattctagTGTCCAACAGGGCGCATCTCATTCAAGTTGTATGATTGGAATCCTGCAGAATTTCCTCGACGACTACGACACCAG
upper sequence: GLYMA15G10620.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv05s0020g02160.t01 (Vitis vinifera), 3'ss of exon 3
-------------------gtgggttgccctttttgtttgttattaaatgtattaggaaat-cgtggttagt---gtttgctgattgaaagttcatttgtagTGCCAAACAGGTCGGATTTCTTTTAAGCTTTATGATTGGAATCCTGCAGAATTTCCTAGAAGGCTACGACACCAA
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gtgggtcttctctaaatgccataattgcttctgtctttactttttcagtttttttgaagatgtgtaattgacctgatatactggtttgatgtttgcttgtagTGCCCTACGGGTCGGATTTCGTTCAAGCTCTATGATTGGAATCCTGCTGAATTTCCCAGACGACTTAGGCACCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttaaatgtattaggaaatcgtggttagtgtttgctgattgaaagttcatttgtagTGCCAAACAGGTCGGATTTCTTTTAAGCTTTATGATTGGAATCCTGCAGAATTTCCTAGAAGGCTACGACACCAA
tgctgat putative branch site (score: 3)
ttcattt putative PPT
tgtatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgggttgccctttttgtttgttattaaatgtattaggaaatcgtggttagtgtttgctgattgaaagttcatttgtagTGCCAAACAGGTCGGATTTCTTTTAAGCTTTATGATTGGAATCCTGCAGAATTTCCTAGAAGGCTACGACACCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG