Sequence
atgc intronic sequence ATGC exonic sequencegtatggcaaccatctccatctgattggttaactagcacagctaacctaatcacgtgacgtgactaatcacctcgatctaattaataactggcagGCGACCAGAGTCCGAACAGGCTGATCCTGGACTGGCAGGGTCGGCTGAGGGTCGCCGTGGGCGTGGTGCGCGGCCTGGCGTTCCTCCACGAGAGGCTCGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G122873_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os03g51060.1 (Oryza sativa), 3'ss of exon 1
gta-tggcaaccatctcca-tctgattggttaactagcacagctaacctaatcacgtgacgtgactaatcacctcgatctaattaataactggc--agGCGACCAGAGTCCGAACAGGCTGATCCTGGACTGGCAGGGTCGGCTGAGGGTCGCCGTGGGCGTGGTGCGCGGCCTGGCGTTCCTCCACGAGAGGCTCGG
||| | || | | | | | | ||| || || ||| |||||| || | | | | |||| | || | ||| ||| |||||| | ||| ||||| || | ||||| |||| || || ||||| ||||||| ||||||||||| ||| |||||| ||||||||||| ||| ||
gtaataataatgacagcaaatactagtagtt--cttaatcaacta--ctaatctcgattatagtttgctaattacgatgtgtttgtttgttggttaagGTGACCAGCGCCCGGACAGGGTGGTGCTGGATTGGCCGGCGAGGATGAGGATCGCCGTCGGCGTGGTGCGAGGCATGGCGTACCTCCACGAGAAGCTGGG
upper sequence: GRMZM2G122873_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os11g40550.2 (Oryza sativa), 3'ss of exon 1
--gtatggcaaccatct-ccatctga-----ttggttaactagcacagctaacctaatcacgtgacgtgactaatcacctcgatctaattaataactggcagGCGACCAGAGTCCGAACAGGCTGATCCTGGACTGGCAGGGTCGGCTGAGGGTCGCCGTGGGCGTGGTGCGCGGCCTGGCGTTCCTCCACGAGAGGCTCGG
| ||| || | |||| | || | | || ||| ||||| || | | | | |||| | || | | |||| |||||||| ||| | ||| || | ||||| |||| || || ||||| ||||||| ||||||||||||||| || ||| ||||||||||| ||| ||
caaagtcaaaacgatttataatctaaaaacgcagggtgtagttctcaatcaac-taatctcgattatagtttgctaattacgatgtgtttgtttggtt-cagGTGACCAGAGCCCGGAGAGGGTGGTGCTGGATTGGCCGGCGAGGATGAGGATCGCCGTCGGCGTGGTGCGCGGCTTGTCGTACCTCCACGAGAAGCTGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctaacctaatcacgtgacgtgactaatcacctcgatctaattaataactggcagGCGACCAGAGTCCGAACAGGCTGATCCTGGACTGGCAGGGTCGGCTGAGGGTCGCCGTGGGCGTGGTGCGCGGCCTGGCGTTCCTCCACGAGAGGCTCGG
taataac putative branch site (score: 1)
atctaattaataact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatggcaaccatctccatctgattggttaactagcacagctaacctaatcacgtgacgtgactaatcacctcgatctaattaataactggcagGCGACCAGAGTCCGAACAGGCTGATCCTGGACTGGCAGGGTCGGCTGAGGGTCGCCGTGGGCGTGGTGCGCGGCCTGGCGTTCCTCCACGAGAGGCTCGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG