Sequence
atgc intronic sequence ATGC exonic sequence...tcgtggtgctgaatttgaaggggctgtcattgcactgtttcatctgttgattacgagaaccgataaagtccgtgctcttcgtgaggctttctaccgccagAACCTTCCAAATGTGACCAATTTGCTTGCCACAGTCTTGGTCTTCCTCATAGTTATCTATTTCCAAGGCTTCCGTGTTGTCCTTCCAGTGAGATCAAAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G073498_T03 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os03g11440.1 (Oryza sativa), 3'ss of exon 3
tcgtggtgctgaatttgaaggggctgtcattgcactgttt-catctgttgattacgagaaccgataaagtccgtgctct-tcgtgaggctttctaccgccagAACCTTCCAAATGTGACCAATT-TGCTTGCCACAGTCTTGGTCTTCCTCATAGTTATCTATTTCCAAGGCTTCCGTGTTGTCCTTCCAGTGAGATCAAAGA
||| | ||||| | | | |||| ||| | | | | || || | | | |||| | ||||| | || | | || || || | | ||| || || ||| | | || ||| | | |||||
-----gtgagcacattgaactttgttcttctctattgttgacattttctattcaacttgacttatggaaatctttctctgtagTGAGAATATCATCTGGAAGGCATTTAGCCCCACAACTATCAACAGTGGCCGTGGTGCTGAG-TTCGAGGGGGCTGTC-ATTGCATTGTTCCATCTGTTGATT------------------
upper sequence: GRMZM2G073498_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA13G34370.1 (Glycine max), 3'ss of exon 3
------------------------------tcgtggtgctgaatttgaaggggctgtcattgcactgtttcatctgttgattacgagaaccgataaagtccgtgctcttcgtgaggctttctaccgcca---------gAACCTTCCAAATGTGACCAATTTGCTTGCCACAGTCTTGGTCTTCCTCATAGTTATCTATTTCCAAGGCTTCCGTGTTGTCCT-TCCAGTGAGATCAAAGA
| | | |||| | | | | ||| | | || ||| | | | || | | | | | | | || ||| | ||| | ||| | |||| | || || | | | | | |||| |||| | ||| || | | | | | | |
gtaaatttctacttttccctgatgagatatttccagcttttaatt--ataatgttcttgttgtcttctagcaactgctaaccaggatatttaaccatttatctaatacttaaatggaattcccttttcgtttttcagTGAAAACATTATATGGAAGGCATTTAGTCCAACCACCATTAACAGTGGGCGTGGAGCTGAATTTG-AAGGTGCTGTTATTGCTCTGTTCCATTTGTTGATA--
upper sequence: GRMZM2G073498_T03 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA06G32680.1 (Glycine max), 3'ss of exon 3
--------tcgtggtgctgaatttgaaggggctgtcattgcactgtttcatctgt---tgattacgagaaccgataaagtccgtgctcttc--------------gtgaggctttctaccgc----cag-
| || || ||||| | | ||| || | ||| | || | | | ||||| || |||| ||| | | | ||| || || ||| | |||| | | || || | | | | | |||| |||| ||| || | | | | | | |
gtaagttttattgtcccttaatttattgtataatttattccagcatcgagcttgtgtctcatagcaactattagcaaagtgtatggtcttttataaaaaacttatatgaattctctgattacattgcagTGAAAACATCATATGGAAAGCATTTAGTCCCACCACCATTAACAGTGGACGTGGAGCTGAATTTG-AAGGTGCTGTCATTGCTCTATTCCATTTGTTGATA-- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgattacgagaaccgataaagtccgtgctcttcgtgaggctttctaccgccagAACCTTCCAAATGTGACCAATTTGCTTGCCACAGTCTTGGTCTTCCTCATAGTTATCTATTTCCAAGGCTTCCGTGTTGTCCTTCCAGTGAGATCAAAGA
tgttgat putative branch site (score: 4)
ctttctacc putative PPT
ataaagt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcgtggtgctgaatttgaaggggctgtcattgcactgtttcatctgttgattacgagaaccgataaagtccgtgctcttcgtgaggctttctaccgccagAACCTTCCAAATGTGACCAATTTGCTTGCCACAGTCTTGGTCTTCCTCATAGTTATCTATTTCCAAGGCTTCCGTGTTGTCCTTCCAGTGAGATCAAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - ggtgctg
- - - - - - - - - -ggggctg
- - - - - - - - - - - - - -cattgca
- - - - - - - - - - - - - - - - - -tgtttca
- - - - - - - - - - - - - - - - - - - - - - tgttgat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgaggct