Sequence
atgc intronic sequence ATGC exonic sequence...cttatgagttatttaatccgttctgaggactaaagtttagtcactgaacttatttgcttgctttctctatagacgaattataacccctgctgctctctagATAGTTGATGCTGTAGTTGCTGCACGTATATTGAATGCTACACTTGTTGTTCCCAAACTGGATCAAACATCTTTCTGGAAAGATTCAAGGTATGCGATAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G168614_T03 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os09g37590.1 (Oryza sativa), 3'ss of exon 7
--cttatgagttatttaatccgttctgaggactaaagtttagtcactgaacttatttgcttgctttctctat-agacgaattataacccctgctgctctctagATAGTTGATGCTGTAGTTGCTGCACGTATATTGAATGCTACACTTGTTGTTCCCAAACTGGATCAAACATCTTTCTGGAAAGATTCAAGGTATGCGATAG
| | ||| || || ||||| | | | | | | | | || || |||| ||| ||| || || || ||||| | ||||||||||||||||||| || |||||||| || || ||||| || |||||||||||| || ||||||||| |||||||||||||||||||||
agcattgcagtaatgccatg-gttctac--atttatttggaactcttaagtagttatgttttttttccatattagatatatcatgacatctgcttatttctagATAGTTGATGCTGTTGTCGCTGCACGCATTTTAAATGCAACGCTTGTTGTTCCCGAATTGGATCAAAGATCTTTCTGGAAAGATTCAAG-----------
upper sequence: GRMZM2G168614_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA02G48050.1 (Glycine max), 3'ss of exon 3
------cttatgagttatttaatccgttctgaggactaaagtttagtcactgaacttatttgcttgctttctctatagacgaattataacccctgctgct-ctctagATAGTTGATGCTGTAGTTGCTGCACGTATATTGAATGCTACACTTGTTGTTCCCAAACTGGATCAAACATCTTTCTGGAAAGATTCAAGGTATGCGATAG
|||| || ||||| | || | | |||| | || | || | | |||| ||||| | | || || ||||| |||||||||| || |||||| | | ||||||||||| ||||||||||| | ||||||| |||||||||||||| || ||||
gcaaccaacatgaatttattaata------atgtacctgaaatatgtca-tatgctattgctctaaatccaaggagagaccaattaatatgggagttgtggctgcagATAATTGATGCTGTGGTGGCTGCATATCTTTTGAATGCTACTCTTGTTGTTCCAGAGTTGGATCATACATCTTTCTGGAAGGACACAAG-----------
upper sequence: GRMZM2G168614_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA06G02110.1 (Glycine max), 3'ss of exon 3
cttatgagttatttaatccgttctgaggactaaagtttagtcactgaacttatttgcttgcttt-ctctatagacgaattat--aacccctgctgctctctagATAGTTGATGCTGTAGTTGCTGCACGTATATTGAATGCTACACTTGTTGTTCCCAAACTGGATCAAACATCTTTCTGGAAAGATTCAAGGTATGCGATAG
|| | | ||| ||| ||| | | || ||| | | | || | || | | | ||| | |||| || | |||| |||||||| |||||||| || || ||||||||||| ||||| ||||| ||| |||||||| ||||||||||||||| || ||
aagatagagaacactgcagtatatgataactgttgttggattgc--aaactatctccatactctgctattaatgccaatctttgggtttctgcaactggc-agATTACAGATGCTGTTGTTGCTGCGCGAATTTTGAATGCTACTCTTGTAGTTCCAAAATTGGATCAACGATCTTTCTGGAAAGACTCTAG-----------
upper sequence: GRMZM2G168614_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA04G02010.1 (Glycine max), 3'ss of exon 4
cttatgagttatttaatccgt-tctgaggactaaagtttagtcactgaacttatttgcttgctttctctatagacgaattataacccctgctgctctc--tagATAGTTGATGCTGTAGTTGCTGCACGTATATTGAATGCTACACTTGTTGTTCCCAAACTGGATCAAACATCTTTCTGGAAAGATTCAAGGTATGCGATAG
| | || | | || | ||| ||| ||| | | | || ||| ||| | || || | | | | | |||| | |||| |||||||| ||||||||||| || ||||||||||| ||||| ||||| ||| |||||||| |||||||||||||||||| ||
-tcaagatagaacactgcagtatatgataactgtcgttgaattgc--aaactatctgcatactcggctattaatgccaatctttctgtttctgcatttggcagATTACGGATGCTGTTGTTGCTGCACGAATTTTGAATGCTACTCTTGTGGTTCCAAAATTGGATCAACGATCTTTCTGGAAAGATTCTAG-----------
upper sequence: GRMZM2G168614_T03 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA14G00520.1 (Glycine max), 3'ss of exon 3
-cttatgag-ttatttaat-ccgttctgaggactaaagtttagtcactgaacttatttgcttgctttctctatagacgaattataacccctgctgctc--tctagATAGTTGATGCTGTAGTTGCTGCACGTATATTGAATGCTACACTTGTTGTTCCCAAACTGGATCAAACATCTTTCTGGAAAGATTCAAGGTATGCGATAG
|| | | ||| | || | | | | | | ||||| | || ||||| || | | | | |||| | | | | | |||||||||||||||| || |||||| | | ||||||||||| ||||||||||| | ||||||| || |||||||||||||| | ||
tctggcggggctatcagacaccaatataataagtga--tttagggat---acaaatttgagtgacatgaagaaggctaatttatgtagctggattattgatgcagATAGTTGATGCTGTGGTGGCTGCATATCTTTTGAATGCTACCCTTGTTGTTCCAGAGTTGGATCATACTTCTTTCTGGAAAGACACCAG----------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaacttatttgcttgctttctctatagacgaattataacccctgctgctctctagATAGTTGATGCTGTAGTTGCTGCACGTATATTGAATGCTACACTTGTTGTTCCCAAACTGGATCAAACATCTTTCTGGAAAGATTCAAGGTATGCGATAG
ttataac putative branch site (score: 2)
cccctgctgctctct CT-rich tract
aattataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttatgagttatttaatccgttctgaggactaaagtttagtcactgaacttatttgcttgctttctctatagacgaattataacccctgctgctctctagATAGTTGATGCTGTAGTTGCTGCACGTATATTGAATGCTACACTTGTTGTTCCCAAACTGGATCAAACATCTTTCTGGAAAGATTCAAGGTATGCGATAG
- - - - - - - - - - - - - - - - - - - - -cactgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cccctgc