Sequence
atgc intronic sequence ATGC exonic sequence...tgcttccttgcaaatttacgtctttatttaactaatcattgttttttacttcatataccattttttgttctcaagttaggttgaatctgtttaattttagGCTATTGCCTCTGCCAGAATGAAGGGAGAATATCCTGAGAGAGTGGGACAGCCAGAGTGTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G107491_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g68860.3 (Oryza sativa), 3'ss of exon 2
tgcttccttgcaaatttacgtctt-tatttaa--ctaatcattgt-tttttacttcatataccat-tttttgttctcaagttaggttgaatctgtttaattttagGCTATTGCCTCTGCCAGAATGAAGGGAGAATATCCTGAGAGAGTGGGACAGCCAGAGTGTCAG
| || ||||| | |||| |||| || || ||| || | | ||| ||||||| ||| ||||| |||||||||||| ||| ||||||||||| ||||||||||||||||||||||||||| |||||||| |||||||| |||| || ||||| ||||||
----tttctgtaaatt-atatcttatattcaattctgatcgttttatcttttcttcatacctcatgtttttattctcaagttagattggatctgtttaatgttagGCTATTGCCTCTGCCAGAATGAAAGGAGAATACCCTGAGAGGATGGGGCAACCAGAATGTCAG
upper sequence: GRMZM2G107491_T03 (Zea mays), 3'ss of exon 2
lower sequence: Vv04s0023g00370.t01 (Vitis vinifera), 3'ss of exon 2
tgcttccttgcaaatttacgtctttatttaactaatcattgttttttacttcatataccattttttgttctcaagttaggttgaatctgtttaat--tttagGCTATTGCCTCTGCCAGAATGAAGGGAGAATATCCTGAGAGAGTGGGACAGCCAGAGTGTCAG
| | | | | | ||| | || || ||| ||||| || |||| | |||| || | | || | || || || | |||||||||||| |||| || ||||| ||||| | || |||||| ||||||||||||| ||||||
ctaattcaaatagagcagcatgtttctgtatgtacacatgtgcatttaca-cacatacatgctcatgtt-tcctctaaacttaaccttgattgataatctagGCTATTGCCACTGCAAGGATGAAAGGAGAGTTCCCGGAGAGAATGGGACAGCCAGAATGTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacttcatataccattttttgttctcaagttaggttgaatctgtttaattttagGCTATTGCCTCTGCCAGAATGAAGGGAGAATATCCTGAGAGAGTGGGACAGCCAGAGTGTCAG
gtttaat putative branch site (score: 4)
tctgttt CT-rich tract
aatctgtttaatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcttccttgcaaatttacgtctttatttaactaatcattgttttttacttcatataccattttttgttctcaagttaggttgaatctgtttaattttagGCTATTGCCTCTGCCAGAATGAAGGGAGAATATCCTGAGAGAGTGGGACAGCCAGAGTGTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA