Sequence
atgc intronic sequence ATGC exonic sequencegtacgcaccccgcccttcggtggcttgctttgttacaccgggacccattgccggactaggattagggtttcattatccgtttgttctcgcgtcgaataggtggtgtgctgctcgatctgacgcgtgtttgtttgtttgtttgtttgtttcccggcacagCTCGCTGGCACTCAGTACTCGTCTTCACTGGACTTGCTCCGGCTCTTCGCCTATGGCACCTTGAAGGACTATAAGAGTAAGATCGTGGCCTGCGCCTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G085670_T07 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os07g30840.4 (Oryza sativa), 3'ss of exon 1
--gtacgcaccccgcccttcggtggcttgctttgttacaccgggacccattgccggactaggattagggtttcattatccgtttgttctcgcgtcgaataggtggtgtgctgctcgatctgacgcgtgtttgtttgtttgtttgtttgtttcccggcacagCTCGCTGGCACTCAGTACTCGTCTTCACTGGACTTGCTCCGGCTCTTCGCCTATGGCACCTTGAAGGACTATAAGAGTAAGATCGTGGCCTGCGCCTTTG
|| | ||| ||| | | ||| || | ||| | | || | |||| ||||||||| || |||| | | || | | | | || | | ||| ||| | |||||| |||| || ||||| |||| || |||||| ||||||| |||||||||||||| || ||||||||||| ||||
gtataagggaccc-cccgcctctcgctccgcctgc-gccccgccgcgccgcgcgtgtttagggttagggtttt---------------------------gggggtggaccacctctcctcccccctctgatttcgatctaatgtcagttcgttgatgcagCTCACTGGAACGCAGTATGCGTCGTCTCTGGACGTGCTCCGCCTCTTCGCCTATGGGACATTGAAGGACTACAAGA------------------------ atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgctgctcgatctgacgcgtgtttgtttgtttgtttgtttgtttcccggcacagCTCGCTGGCACTCAGTACTCGTCTTCACTGGACTTGCTCCGGCTCTTCGCCTATGGCACCTTGAAGGACTATAAGAGTAAGATCGTGGCCTGCGCCTTTG
atctgac putative branch site (score: 3)
tttgtttgtttccc putative PPT
tttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgcaccccgcccttcggtggcttgctttgttacaccgggacccattgccggactaggattagggtttcattatccgtttgttctcgcgtcgaataggtggtgtgctgctcgatctgacgcgtgtttgtttgtttgtttgtttgtttcccggcacagCTCGCTGGCACTCAGTACTCGTCTTCACTGGACTTGCTCCGGCTCTTCGCCTATGGCACCTTGAAGGACTATAAGAGTAAGATCGTGGCCTGCGCCTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG