Sequence
atgc intronic sequence ATGC exonic sequencegttagcttattgtcacataatataaaagctggttgaatgctttatgataatttaactgtacggacctaattgtttgttgattgtggccaccagTGCACTGTTTTAGAGGTGAAGGTAGTTGAAGGCCATGGAACTACTATTGATGTTGTTTTAGTTAATGGTGTTCTTCATGAAGGAGAACAAATAGTTGTCT
Basic information
species | Glycine max |
transcript | GLYMA20G30590.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G30590.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os05g51500.1 (Oryza sativa), 3'ss of exon 5
gttagcttattgtcacataatataaaagctggttgaatgc-tttatgataatttaactgtacggacctaattgtttgttgattgtggccaccagTGCACTGTTTTAGAGGTGAAGGTAGTTGAAGGCCATGGAACTACTATTGATGTTGTTTTAGTTAATGGTGTTCTTCATGAAGGAGAACAAATAGTTGTCT
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-----------------------gtacggtgcataaatttacttgtcattataaaagcatgcattcttatctcgtttctgttt--------cagTGTACCGTGCTGGAAGTCAAGGTTGTTGAAGGTCATGGTACTACAGTTGATGTTGTGTTGGTCAACGGTATACTCCATGAAGGAGATCAAATAGTTGTGT
upper sequence: GLYMA20G30590.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G023418_T01 (Zea mays), 3'ss of exon 4
gttagcttattgtcacataatataaaagctggttgaatgctttatgataatttaactgtacggacctaattgtttgttgattgtggccaccagTGCACTGTTTTAGAGGTGAAGGTAGTTGAAGGCCATGGAACTACTATTGATGTTGTTTTAGTTAATGGTGTTCTTCATGAAGGAGAACAAATAGTTGTCT
|||| || | | | | | || || | || | | | || || | ||||| ||||| ||||| | || || ||||| |||||||||||||| ||||| |||||||||||||| || |||||| | || ||||||||||| ||||||||||| |
----------------gtaatgtac---tttgatctttattataccattacagaaaaatgcattcttatcgattgtcttgttgtgttt--cagTGTACTGTACTGGAAGTCAAGGTTGTTGAAGGCCATGGTACTACAATTGATGTTGTTTTGGTCAATGGTATACTCCATGAAGGAGATCAAATAGTTGTTT
upper sequence: GLYMA20G30590.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv18s0076g00310.t01 (Vitis vinifera), 3'ss of exon 6
-gttagcttattgtcacataatataaaagctggttgaatgctttatgataatttaactgtacggacc-taattgtttgttgattgtggccaccagTGCACTGTTTTAGAGGTGAAGGTAGTTGAAGGCCATGGAACTACTATTGATGTTGTTTTAGTTAATGGTGTTCTTCATGAAGGAGAACAAATAGTTGTCT
| || || |||| || | | | | ||||||| |||||| | | ||| | ||| | |||||| || |||||| || || || ||||| ||||| || || |||||||| || || ||||||||||| || ||||||||||| ||||||||||| || || |||||||| |
gtcttctttcttttcactgtattttga-gttagttgaat--cagatgatagca-ggttatgtggattgtgattttgtgttgaaaatgtttgccagTGTACGGTGTTGGAGGTCAAGGTTGTCGAGGGCCATGGGACAACCATTGATGTTGTGTTGGTTAATGGTGTGCTTCATGAAGGGGATCAGATAGTTGTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctttatgataatttaactgtacggacctaattgtttgttgattgtggccaccagTGCACTGTTTTAGAGGTGAAGGTAGTTGAAGGCCATGGAACTACTATTGATGTTGTTTTAGTTAATGGTGTTCTTCATGAAGGAGAACAAATAGTTGTCT
atgataatttaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagcttattgtcacataatataaaagctggttgaatgctttatgataatttaactgtacggacctaattgtttgttgattgtggccaccagTGCACTGTTTTAGAGGTGAAGGTAGTTGAAGGCCATGGAACTACTATTGATGTTGTTTTAGTTAATGGTGTTCTTCATGAAGGAGAACAAATAGTTGTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA