Sequence
atgc intronic sequence ATGC exonic sequencegtatatttatagagaattattctcaagaataatgttattatggtcattttgctaaattatcgtaattattccttcacttaattttggatattctatacatttttcagAATGGTAAGCAGATGGTGCAAGAAGGTGCCTTAACTGCTTTGGCATCAGTTGCTGATTCTTCTCAG
Basic information
species | Glycine max |
transcript | GLYMA05G28950.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G28950.1 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os03g49420.2 (Oryza sativa), 3'ss of exon 2
gtatatttatagagaattattctcaagaataatgttattatggtcattttgctaaattatcgtaattattccttcacttaattttggatattctatacatttttcagAATGGTAAGCAGATGGTGCAAGAAGGTGCCTTAACTGCTTTGGCATCAGTTGCTGATTCTTCTCAG
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---------------gtaatccttgcatttgatcatggagccttcattttg-tgcagcataaacatgaaccttttcggaaattttgtttgttttctga------tagACTGGAAACCAAATGGTGCAAGAAGGTGCTTTAACTGCTTTAGCATCAGCTGCAGATTCTTCTCAG
upper sequence: GLYMA05G28950.1 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G033619_T01 (Zea mays), 3'ss of exon 2
gtatat-ttatagagaattattct-caagaataatgttattatggtcattttgctaaattatcgtaattattccttcactt-aattttggatattctatacatttttcagAATGGTAAGCAGATGGTGCAAGAAGGTGCCTTAACTGCTTTGGCATCAGTTGCTGATTCTTCTCAG
|| || | | | | | || | || | | ||| | |||| | || || | |||||| | | || || ||| || | || | ||| ||| || || ||||||||||||| ||| ||||||||||| ||||||| || ||||||||||||
gtggatctcacatctagtctttaaaccttaactttaacagtatagacattagacataagcataatgtttattctgttattttaaacttgtatgctt-----atgatgtagACTGGGAACCAAATGGTGCAAGAAGCTGCTTTAACTGCTTTAGCATCAGCAGCAGATTCTTCTCAG
upper sequence: GLYMA05G28950.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G19820.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatatttatagag--aattatt-ctcaagaataatgtt---attatggtcattttgctaaattatcgtaattattccttcacttaattttggatattcta-tacatttttcagAATGGTAAGCAGATGGTGCAAGAAGGTGCCTTAACTGCTTTGGCATCAGTTGCTGATTCTTCTCAG
||| | || | | ||||||| || |||| ||| | | | | | | | | | | | ||| || | | | | ||| | ||| | | | | ||||||||||| || |||||||||||||| || ||||||||| | || ||||| |||||||| || |||
gtaagtccattgtgtaaattatttcttaagataaatagctaaaaaagagcaaatattttgcactctattgatt-ttaaatgattaactttggattataatggtgtttcgtacagAATGGTAAACAAATGGTGCAAGAAGGAGCTTTAACTGCTCTTGCTTCAGTGGCTGATTCATCACAG
upper sequence: GLYMA05G28950.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv06s0004g00500.t01 (Vitis vinifera), 3'ss of exon 3
gtatatttataga-gaattat-----tctcaagaataatgttattatggt-----cattttgctaaattatcgtaattattccttca--cttaattttggatattctatacatttttcagAATGGTAAGCAGATGGTGCAAGAAGGTGCCTTAACTGCTTTGGCATCAGTTGCTGATTCTTCTCAG
|||| | ||| |||| | | || | |||| ||| || || | |||| | || | ||| | ||||||||| ||||| | | || | |||||||| || || ||||||||||| || ||||| |||||||| || || ||||||||||| ||||||
gtatgacaagagaagaatcaccaccatttccacaatacaaacattcaagtagatgcagtaatgtaaaccctgtggataacatctttatccttaatttt--atattatgt-tgttatccagAATGGAAAACAAATGGTGCAAGAGGGGGCCTTGACTGCTTTAGCGTCTGTTGCTGATTCATCTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taaattatcgtaattattccttcacttaattttggatattctatacatttttcagAATGGTAAGCAGATGGTGCAAGAAGGTGCCTTAACTGCTTTGGCATCAGTTGCTGATTCTTCTCAG
catttttc CT-rich tract
ttaattttggatattc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatatttatagagaattattctcaagaataatgttattatggtcattttgctaaattatcgtaattattccttcacttaattttggatattctatacatttttcagAATGGTAAGCAGATGGTGCAAGAAGGTGCCTTAACTGCTTTGGCATCAGTTGCTGATTCTTCTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGAT