Sequence
atgc intronic sequence ATGC exonic sequence...caaagaagaatgatgccaaacattaaccataccaataaatttctaagagtttgcactgcttctatattgatcttgtttcactctgctctaatttgttcagGGCTTAAAAACAGCAATAATTGAGGGAGATGTTGTGGGTGGGACTTGTGTAAACAGAGGCTGTGTCCCATCGAAAGCGCTTCTTGCTGTCAGCGGTCGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os05g06460.1 (Oryza sativa), 3'ss of exon 1
caaagaagaatgatgccaaacattaaccataccaataaatttctaagagtttgc-actgct-tctatattgatcttgtttcactctgctctaatttgttcagGGCTTAAAAACAGCAATAATTGAGGGAGATGTTGTGGGTGGGACTTGTGTAAACAGAGGCTGTGTCCCATCGAAAGCGCTTCTTGCTGTCAGCGGTCGAA
| | | | | | || | | ||| | || || ||| | |||||| ||| || | || | | || | ||||||| ||||| || ||||| ||||| ||||||||||||||||| ||||||||||||||||||||||| ||||||||||| ||||| |||||||||||||||||||| |
-ataagattgcagagttataaatgtaata-acctgttcgttattactagtccactactgctgtctcaatgtgttaagtgttaactggcccaaatttgtgcagGGTTTGAAAACTGCAATTATTGAGGGAGATGTTGTAGGTGGGACTTGTGTAAACAGAGGTTGTGTCCCATCAAAAGCACTTCTTGCTGTCAGCGGTCGCA
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA17G03560.1 (Glycine max), 3'ss of exon 1
-caaagaagaatgatgccaaacattaaccataccaataaatttctaagagttt-gcactgcttctatattgatcttgtttcactctgctctaatttgttcagGGCTTAAAAACAGCAATAATTGAGGGAGATGTTGTGGGTGGGACTTGTGTAAACAGAGGCTGTGTCCCATCGAAAGCGCTTCTTGCTGTCAGCGGTCGAA
|| | | || | | || | | | | | |||| | | | | | | | |||| | | | ||| ||||| || |||||||| || | || |||||||| ||||| ||||| ||||| |||||||||||||| || || ||||| ||| | || || || ||||| |
atgaatcaagaaattgatagtcgttgatgctgactgtgggataaagtaagttgagtatcacatttttgtgagataggttttattaacggcatgattg--cagGGTTTGAAAACAGCCATTGTGGAAGGAGATGTGGTGGGAGGGACATGTGTGAACAGAGGCTGTGTTCCTTCCAAAGCTCTTTTAGCCGTGAGTGGTCGTA
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT4G16155.1 (Arabidopsis thaliana), 3'ss of exon 1
caaagaagaatgatgccaaacatt-aaccataccaataaatttctaagagtttgcactgcttctatattgatcttgtttcact-ctgctctaat----ttgttcagGGCTTAAAAACAGCAATAATTGAGGGAGATGTTGTGGGTGGGACTTGTGTAAACAGAGGCTGTGTCCCATCGAAAGCGCTTCTTGCTGTCAGCGGTCGAA
||| ||||||| | || | ||| | | || || | | || | | || | | | | | | || | | || |||| |||| | ||||| || || ||||| ||||||||||| || || ||||| || |||||||||||||| || || ||||| || |||||||| || ||| | |
----cttcaat-atgccaattttggaatcgtactagcta-ttactgtatttctttacggtattcatgatctcatcgagtgattgttgttttgataacgttgtatagGGACTCAAAACTGCTATCATTGAAGGAGATGTTGTTGGAGGTACTTGCGTTAACAGAGGCTGTGTGCCTTCCAAAGCTCTACTTGCTGTTAGTGGTAGGA
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT3G16950.1 (Arabidopsis thaliana), 3'ss of exon 1
caaagaagaatgatgccaaacattaaccataccaataaatttctaagagtttgcactgctt-ctatattgatcttgtttcactctgctctaatttgttcagGGCTTAAAAACAGCAATAATTGAGGGAGATGTTGTGGGTGGGACTTGTGTAAACAGAGGCTGTGTCCCATCGAAAGCGCTTCTTGCTGTCAGCGGTCGAA
| | | || | | || || | |||| ||||| |||||| ||| | ||| | | | || | | |||| || ||||||| |||| || ||||| ||||||||||| || ||||||||||| |||||||| ||||| || || ||||| ||||||||||| || |||||||
-----gtttgaagtttcttatataacctgatttgatgaaagtaaaaga-tttgctctgcttattatggaaacattggtg-attttgtt----tgtgttagGGACTTAAAA-CAGCCATTATTGAAGGAGATGTTGTTGGAGGGACTTGTGTTAACAGAGGATGTGTGCCTTCTAAAGCTCTTCTTGCTGTTAGTGGTCGAA
upper sequence: GRMZM2G073774_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv05s0077g01210.t01 (Vitis vinifera), 3'ss of exon 1
caaagaagaatgatgccaaacattaaccataccaataaatttctaagagtttgcactgcttctatattgatcttgtttcactctgctctaatttgtt--cagGGCTTAAAAACAGCAATAATTGAGGGAGATGTTGTGGGTGGGACTTGTGTAAACAGAGGCTGTGTCCCATCGAAAGCGCTTCTTGCTGTCAGCGGTCGAA
| | | || | | | | | | | | | | || | | || | | | | | | | | || || ||||| | ||||| || || |||||||||||||| |||||||| || |||||||||||||| ||||| || || ||||| ||||| ||||| || |||||||
-attgtaaaaagttaattagttgtgtgtgtgcgtgtgcgtgtgtgtttattgatattcaagtcat-taagggtggaataattttaaaaataattattgacagGGTCTGAAAACTGCCATCATTGAGGGAGATGTGGTGGGTGGAACATGTGTAAACAGAGGTTGTGTTCCTTCTAAAGCTCTTCTGGCTGTAAGTGGTCGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agagtttgcactgcttctatattgatcttgtttcactctgctctaatttgttcagGGCTTAAAAACAGCAATAATTGAGGGAGATGTTGTGGGTGGGACTTGTGTAAACAGAGGCTGTGTCCCATCGAAAGCGCTTCTTGCTGTCAGCGGTCGAA
ctctaat putative branch site (score: 3)
tttgttc CT-rich tract
ttctatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caaagaagaatgatgccaaacattaaccataccaataaatttctaagagtttgcactgcttctatattgatcttgtttcactctgctctaatttgttcagGGCTTAAAAACAGCAATAATTGAGGGAGATGTTGTGGGTGGGACTTGTGTAAACAGAGGCTGTGTCCCATCGAAAGCGCTTCTTGCTGTCAGCGGTCGAA
- aagaagaa
- - - - - tgatgcc
- - - - - - - - - - - - - - - - caataaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgcttc