Sequence
atgc intronic sequence ATGC exonic sequence...atatgatatatttacttagaaagttttggatttcatctattaaatcttatcatgttactttcctaaagatataggcttaacaaaatacaactcttttcagATGAGGAGGACCAGATGATAGTTGCTGCTCATGCAATCCATGGGAACAAATGGGCAGCCATTGCCAGGCTTCTACCAGGAAGAACAGATAATGCGATTAA
Basic information
species | Glycine max |
transcript | GLYMA03G15810.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA03G15810.1 (Glycine max), 3'ss of exon 1
lower sequence: LOC_Os01g63160.1 (Oryza sativa), 3'ss of exon 1
atatgatatatttacttagaaagttttggatttcatctattaaatcttatcatgttactttcctaaagatataggcttaacaaaatacaactctttt--cagATGAGGAGGACCAGATGATAGTTGCTGCTCATGCAATCCATGGGAACAAATGGGCAGCCATTGCCAGGCTTCTACCAGGAAGAACAGATAATGCGATTAA
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--gtagcattatgggcatgaacattgcgcgttcagtctgttgtgtagtttcgttgcatctctgtaaaacttgcttgttaaattattattgctgtttctgcagAGGAGGAAGACCGCATTATAATGGCTGCTCATGCAATCCATGGAAACAAGTGGGCGGCTATTGCAAAGCTTTTGGTTGGGAGAACCGATAATGCAATCAA
upper sequence: GLYMA03G15810.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv08s0007g01540.t01 (Vitis vinifera), 3'ss of exon 1
----atatg-atatatttacttagaaagttttggatttcatctattaaatcttatcatgttactttcctaaagatataggcttaacaaaatacaactcttttcagATGAGGAGGACCAGATGATAGTTGCTGCTCATGCAATCCATGGGAACAAATGGGCAGCCATTGCCAGGCTTCTACCAGGAAGAACAGATAATGCGATTAA
|| || | | | | | ||| ||| | | | | | || | | | | ||| ||||| || | | | || ||||||||||||| | || ||||||||||| |||||||||||||| |||||||||||| | ||||| |||||||| | ||| |||||||||||||| |||||
gtttattcacatttgtgtgcgtgcaaaaagttg---tcagtgtgtcagtctttgaactttcaatggtgcaaatcatggttcttaatgaactg--agttgttgcagATGAGGAGGATCGTATCATAGTTGCTGCACATGCAATCCATGGAAACAAATGGGCATCAATTGCAAGGCTTCTTCAAGGGAGAACAGATAATGCAATTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttatcatgttactttcctaaagatataggcttaacaaaatacaactcttttcagATGAGGAGGACCAGATGATAGTTGCTGCTCATGCAATCCATGGGAACAAATGGGCAGCCATTGCCAGGCTTCTACCAGGAAGAACAGATAATGCGATTAA
ctcttttc CT-rich tract
ttaacaaaatacaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatgatatatttacttagaaagttttggatttcatctattaaatcttatcatgttactttcctaaagatataggcttaacaaaatacaactcttttcagATGAGGAGGACCAGATGATAGTTGCTGCTCATGCAATCCATGGGAACAAATGGGCAGCCATTGCCAGGCTTCTACCAGGAAGAACAGATAATGCGATTAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacaaaa