Sequence
atgc intronic sequence ATGC exonic sequence...ttttgctaagatgtttcccttgatctagttaagtgtcaagattatcagcacctataaaagttataacttggttcttattattttatataatgctgttcagGTAAAGTTGAGAGAGATGAAACCTGGCATGTTATCACATGAATTAAAAGAAGCTCTTGGTATGCCTGAGGGTGCTCCTCCACCATGGCTTATTAATATGC
Basic information
species | Glycine max |
transcript | GLYMA13G25110.2 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G25110.2 (Glycine max), 3'ss of exon 8
lower sequence: LOC_Os02g58090.1 (Oryza sativa), 3'ss of exon 8
------------------ttttgctaagatgtttcccttgatctagttaagtgtcaa---------------gattatcagcacctataaaagttataacttggttcttattattttatata---atgctgttcagGTAAAGTTGAGAGAGATGAAACCTGGCATGTTATCACATGAATTAAAAGAAGCTCTTGGTATGCCTGAGGGTGCTCCTCCACCATGGCTTATTAATATGC
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gtacttttacattatctttcatgctgatatatataaaagaatcgagataattggtaactgtctgcacaatccatttatctgtgttttcgtacattgagtatttgaatttgttgctttgtacatgtggacttaatagGTCAAGCTTAGGGAAATGAAGCCAGGCATGCTGTCGCGAGAACTTAAAGAGGCTCTTGGTATGCCTGATGGTGCGCCACCTCCATGGCTTATAAACATGC
upper sequence: GLYMA13G25110.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G121354_T01 (Zea mays), 3'ss of exon 4
-----------ttttgctaagatgtttcccttgatctagtta-agtgtcaagattatc--agcacctataaa-agttataacttggt-------tcttattattttatataatgctgttcagGTAAAGTTGAGAGAGATGAAACCTGGCATGTTATCACATGAATTAAAAGAAGCTCTTGGTATGCCTGAGGGTGCTCCTCCACCATGGCTTATTAATATGC
|||| | || | | || | | | || | || | ||| |||| | ||| | || | | || ||| || | | | ||||| || |||| || ||||| || |||||| | || ||||| | ||||| ||||||||||||||||| ||||| ||||| ||||||||||| || ||||
gtacgtatgcttttttgtgttataactgcaaagagccaaagatagagcaaataccatccagatgtctatgtatggttttggtgtgataacaccatattcttaacttccacttcgttcgacagGTTAAACTGAGGGAAATGAAGCCAGGCATGCTGTCTCATGAGCTTAAAGATGCTCTTGGTATGCCTGATGGTGCCCCTCCCCCATGGCTTATAAACATGC
upper sequence: GLYMA13G25110.2 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G132060_T02 (Zea mays), 3'ss of exon 7
----------ttttgctaagatgtttcccttgatctagtta--agtgtcaagattatca--gcacc-tataaaagttataacttggt-tcttattattttatataatgctgttcagGTAAAGTTGAGAGAGATGAAACCTGGCATGTTATCACATGAATTAAAAGAAGCTCTTGGTATGCCTGAGGGTGCTCCTCCACCATGGCTTATTAATATGC
|||| | || | | ||| || | | || |||| ||| | || | | | || |||||| | || ||| ||| || | | |||| || |||| || ||||| || |||||| | || | ||| | ||||| ||||||||||||||||| || || ||||| ||||||||||| || ||||
gtacgtatgttttttgtgttataactgcaaagatagagcaattaccatccagatggtcattgtacggttttgatgtgataactcaccatgttcttaatttctactttattccaaagGTTAAACTGAGGGAAATGAAGCCAGGCATGCTGTCTCGTGAGCTTAAAGATGCTCTTGGTATGCCTGATGGCGCCCCTCCCCCATGGCTTATAAACATGC
upper sequence: GLYMA13G25110.2 (Glycine max), 3'ss of exon 8
lower sequence: AT4G21660.1 (Arabidopsis thaliana), 3'ss of exon 7
-----ttttgctaagatgtttcccttgatctagttaagtgtcaagattatcagcacctataaaagttataacttggttcttattattttatataatgctgttcagGTAAAGTTGAGAGAGATGAAACCTGGCATGTTATCACATGAATTAAAAGAAGCTCTTGGTATGCCTGAGGGTGCTCCTCCACCATGGCTTATTAATATGC
| | | | |||||| | | || || | | | | | | | | || || ||| |||| | || || |||| || |||| || | |||||| || | || ||| | || |||||||||||||||||||||||||| || |||||||| |||||||| ||||| ||||
gtaattccttgtgacatgttttttcagctttatctata-attacattgcttggtttcattggtttgtttacctaaaatctaattact--atcatttgggaaatagGTTAAACTGAGGGAAACGAAACCAGGGTTTTTGTCAAACGACTTAAAAGAAGCTCTTGGTATGCCTGAAGGCGCTCCTCCCCCATGGCTGATTAACATGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cagcacctataaaagttataacttggttcttattattttatataatgctgttcagGTAAAGTTGAGAGAGATGAAACCTGGCATGTTATCACATGAATTAAAAGAAGCTCTTGGTATGCCTGAGGGTGCTCCTCCACCATGGCTTATTAATATGC
ttataac putative branch site (score: 2)
tataaaagttataact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttgctaagatgtttcccttgatctagttaagtgtcaagattatcagcacctataaaagttataacttggttcttattattttatataatgctgttcagGTAAAGTTGAGAGAGATGAAACCTGGCATGTTATCACATGAATTAAAAGAAGCTCTTGGTATGCCTGAGGGTGCTCCTCCACCATGGCTTATTAATATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC