Sequence
atgc intronic sequence ATGC exonic sequence...tgtaagctacatctgttgatagatctgcacttcaatatatgttgcactcagtgcattttccttgaggtatgttcatagatcttaattctcttcttttcagATCCTTTTTCTATGGCACCTCCTAAAGCCCTTGAGAGTATTGGAAAAACGTTGCATTCACAGTATGAGCGCTGGCAACCTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os11g01872.1 (Oryza sativa), 3'ss of exon 1
-------tgtaagctacatctgttgatagatctgcacttcaatatatgttgcactcagtgcattttccttgaggtatgttcatagatcttaattctcttcttttcagATCCTTTTTCTATGGCACCTCCTAAAGCCCTTGAGAGTATTGGAAAAACGTTGCATTCACAGTATGAGCGCTGGCAACCTAAG
| ||| || | || |||| |||| || | | ||| | || || || | ||||| | | |||||| |||| | | | ||||||||||| ||||||||||||||||| ||||||||||| | |||||| ||||| || || ||||| |||||||||||||| || |||
aagcttatctaaaataaacatggtgattcatct----ttgtactcctaatgcgttt-gtacagttgctttgagtttttctcatagctctt--tcatttatttttcagATCCATTTTCTATGGCACCTCCAAAAGCCCTTGAAACTATTGGGAAAACATTACACTCACAATATGAGCGCTGGCAGCCAAAG
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os12g01922.1 (Oryza sativa), 3'ss of exon 2
----tgtaagctacatctgttgatagatctgcacttcaatatatgttgcactcagtgcattttccttgaggtatgttcatagatctta-attctcttcttttcagATCCTTTTTCTATGGCACCTCCTAAAGCCCTTGAGAGTATTGGAAAAACGTTGCATTCACAGTATGAGCGCTGGCAACCTAAG
| ||| || | || |||| |||| || | | ||| | || || || | ||||| | | |||||| |||| ||| || | ||||||||| ||||||||||||||||| ||||||||||| | |||||| ||||| || || ||||| |||||||||||||| || |||
cttatctaaaataaacatggtgattcatct----ttgtactcctaatgcgttt-gtacagttgctttgagtttttctcatagctctttcatttatttatcttcagATCCATTTTCTATGGCACCTCCAAAAGCCCTTGAAACTATTGGGAAAACATTACACTCACAATATGAGCGCTGGCAGCCAAAG
upper sequence: GRMZM2G048067_T02 (Zea mays), 3'ss of exon 2
lower sequence: AT3G08850.1 (Arabidopsis thaliana), 3'ss of exon 2
--tgtaagctacatctgtt-gatagatctgcacttcaatatatgttgcactcagtgcattttccttgaggtatgttca--tagatcttaattctcttcttttc-------agATCCTTTTTCTATGGCACCTCCTAAAGCCCTTGAGAGTATTGGAAAAACGTTGCATTCACAGTATGAGCGCTGGCAACCTAAG
|| || | || | || | |||| | | | || | | | |||| | | | ||| | |||| ||| | || |||| |||||| |||||||||||||| |||||||| || |||| |||||||||| ||| | ||||||||| | |||||||| | |
gttgaaactttggcctactcaatcctattacactctt-tcttttctgtgtttatcccttttttttgtcgccacagtcaattttatctctattttttttctttctgatggcagATCCATTTTCTATGGCACCGCCTAAAGCTCTCGAGACAATTGGAAAAAATTTGAGCACTCAGTATGAGAGATGGCAACCCAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actcagtgcattttccttgaggtatgttcatagatcttaattctcttcttttcagATCCTTTTTCTATGGCACCTCCTAAAGCCCTTGAGAGTATTGGAAAAACGTTGCATTCACAGTATGAGCGCTGGCAACCTAAG
tcttaat putative branch site (score: 3)
tcttaattctcttctt CT-rich tract
atcttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtaagctacatctgttgatagatctgcacttcaatatatgttgcactcagtgcattttccttgaggtatgttcatagatcttaattctcttcttttcagATCCTTTTTCTATGGCACCTCCTAAAGCCCTTGAGAGTATTGGAAAAACGTTGCATTCACAGTATGAGCGCTGGCAACCTAAG
- - - ctacatc
- - - - - - -tgttgat
- - - - - - - - - - - -tctgcac
- - - - - - - - - - - - - - - - - - - -tgttgca