Sequence
atgc intronic sequence ATGC exonic sequence...tggcctagttcagtcatatttgttacatgctgttgcatataggttaaatagattcacaactgttaagagctttagttaatgttttgtgaacttctgttagGAATGGTGACACCTACGCGGGAGAGTACTTTGCTGATAGGATGCACGGCTTTGGAATCTACAGCTTTGCCAATGGTCATAGATACGAGGGAGCATGGCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G148180_T02 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os10g41534.3 (Oryza sativa), 3'ss of exon 1
tggcctagttcagtcatatttgttacatgctgttgcatataggttaaatagattcacaactgttaag---agcttt-agttaatgttttgtgaacttctgtta-gGAATGGTGACACCTACGCGGGAGAGTACTTTGCTGATAGGATGCACGGCTTTGGAATCTACAGCTTTGCCAATGGTCATAGATACGAGGGAGCATGGCAT
| |||| | | | || || || | | | | || | || | | |||| | ||| |||||| ||||| ||| | ||||||| || ||||| || || ||||||||||||||||| ||||| ||||| ||| ||||||| |||||||||||||| |||||||||||||| ||||||
-----tgattcactagtgctctatatatctatttatacgatgcagcatcctgtacaagtttattgggttgacctttgaactaacattttgttaacttgtgtcaagGAATGGCGATACCTATGCTGGGGAGTACTTTGCTGATAGAATGCATGGCTTCGGAGTCTACAGTTTTGCCAATGGTCACAGATACGAGGGAGCTTGGCAT
upper sequence: GRMZM2G148180_T02 (Zea mays), 3'ss of exon 2
lower sequence: Vv15s0021g01010.t01 (Vitis vinifera), 3'ss of exon 2
tggcctagttcagtcatatttgttacatgctgt-tgcat----ataggttaaatagattcacaactgttaagagctttagttaatgttttgtgaacttctgttagGAATGGTGACACCTACGCGGGAGAGTACTTTGCTGATAGGATGCACGGCTTTGGAATCTACAGCTTTGCCAATGGTCATAGATACGAGGGAGCATGGCAT
| ||| |||| || || | | ||||| ||| || || | ||||| | ||| | | ||| | | | | | | | | || ||||| ||||| || || ||||| |||||||| || | |||||| || |||||||| || | ||||||||||||||| | || |||||||| ||||||
taaatgctttctctcatgttgcttctaagaaaaatgcattgccatatgtaaattcaattca-acctgcttgg----ttactaacttatctatatattatatccagAAATGGGGACACATATGCTGGAGAATACTTTGCAGACAAGATGCATGGGTTTGGAATTTATAATTTTGCCAATGGTCATCGGTATGAGGGAGCCTGGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaatagattcacaactgttaagagctttagttaatgttttgtgaacttctgttagGAATGGTGACACCTACGCGGGAGAGTACTTTGCTGATAGGATGCACGGCTTTGGAATCTACAGCTTTGCCAATGGTCATAGATACGAGGGAGCATGGCAT
agttaat putative branch site (score: 4)
cttctgtt putative PPT
tttagttaatgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggcctagttcagtcatatttgttacatgctgttgcatataggttaaatagattcacaactgttaagagctttagttaatgttttgtgaacttctgttagGAATGGTGACACCTACGCGGGAGAGTACTTTGCTGATAGGATGCACGGCTTTGGAATCTACAGCTTTGCCAATGGTCATAGATACGAGGGAGCATGGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - - - - - - - - - gctgttg
- - - - - - - - - - - - - - - - - - - - - - - - - gattcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttttg