Sequence
atgc intronic sequence ATGC exonic sequence...ccaggggcggatctccgaagaggtgaagacgactgattttgaattaaaccacactttaagctttaaagatcaggcgctgtcaactgtattgtttttgcagAGTTTGAAGATGATCTAGATCTTTATGTGCTGAAGCCTTTGAAGTACATTGGAATTGAAGTTTGGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G368807_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g67054.2 (Oryza sativa), 3'ss of exon 8
-----------------------ccaggggcgg-atctccgaagaggtga----agacgactgattttgaattaaaccacac-tttaagctttaaagatcaggcgctgtcaactgtattgtttttgcagAGTTTGAAGATGATCTAGATCTTTATGTGCTGAAGCCTTTGAAGTACATTGGAATTGAAGTTTGGCAG
| | || || | || ||| | ||||||||||| | || | ||| | | | | ||||| | ||||||||||||||| ||||||| ||| || ||||||||||| || ||||| || ||||||||||| |||||||||
gtatgcaaatagtgctactaactttatgtgctacatttagtgtgatatgacactcagcacctgattttgaactgggcctcttgtttgaacacca-----cttaagctgtgtgtaattccaattttgcagAGTTTGAGGATGATCCAGACCTATATGTGCTGAAACCCTTGAAATATATTGGAATTGAGGTTTGGCAG
upper sequence: GRMZM2G368807_T01 (Zea mays), 3'ss of exon 1
lower sequence: GLYMA18G47930.1 (Glycine max), 3'ss of exon 8
-----ccaggggcggatctccgaagaggtgaagacgactgattttgaattaaaccacactttaagctttaaagatcaggcgctgtcaactgtattgtttttgcagAGTTTGAAGATGATCTAGATCTTTATGTGCTGAAGCCTTTGAAGTACATTGGAATTGAAGTTTGGCAG-
|| | |||| | | | | | | | | | |||| || ||| || | | ||| || ||| ||||||||||||| || | |||||||||||||| |||||| | ||||| | || |||||||||||||||
tatgttcaaatgtatatct---aggttctttgtataatttaatatatattacggattttcctacatactaaggaatgcttaaatttca-tgttttcctttatcagaGTTTGAAGACGACCCTGATCTTTATGTGCTTAAGCCTATCAAGTATGTAGGCATTGAAGTTTGGCAGG
upper sequence: GRMZM2G368807_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv05s0102g01190.t01 (Vitis vinifera), 3'ss of exon 8
-----ccaggggcggatc-tccgaagaggtgaa-gacgactgattttgaattaaaccacactttaagctttaaagatcaggcgctgtcaactgtattgtttttgcagAGTTTGAAGATGATCTAGATCTTTATGTGCTGAAGCCTTTGAAGTACATTGGAATTGAAGTTTGGCAG
|| || ||| | | | || ||| ||| ||| | || |||| | | || |||||| | ||| || | || | | ||||||||||||||||| | ||||| ||||| |||||||| | || ||||| ||||||||||||||||||
tctttcctggtatggaccatgcttgtagttgattgacttatgaacaccagttcaacctctaaattagttttaaaactt-----ctgctttctttcttatct--gcagAGTTTGAAGATGACCCTGATCTATATGTACTGAAGCCAATAAAATACATAGGAATTGAAGTTTGGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaccacactttaagctttaaagatcaggcgctgtcaactgtattgtttttgcagAGTTTGAAGATGATCTAGATCTTTATGTGCTGAAGCCTTTGAAGTACATTGGAATTGAAGTTTGGCAG
ttgttttt CT-rich tract
tattgttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ccaggggcggatctccgaagaggtgaagacgactgattttgaattaaaccacactttaagctttaaagatcaggcgctgtcaactgtattgtttttgcagAGTTTGAAGATGATCTAGATCTTTATGTGCTGAAGCCTTTGAAGTACATTGGAATTGAAGTTTGGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - -actgatt
- - - - - - - - - - - - - - - - - - - - - - - aaccaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggcgctg