Sequence
atgc intronic sequence ATGC exonic sequence...tgatgaattgtattatcttgtgccgcctatagcacacatcttcctgattttggctttccaatgacatttccttcttttattgttttgttgtcaaccctagCCAAAGGACAGTCAATACATAACATTAGATGATGGCCGGAGACTCTGCTTGGAGTGTCTGCATACTGCTATTATGGAGACCAATGAATGCCAGCCACTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G342105_T02 (Zea mays), 3'ss of exon 4
lower sequence: LOC_Os03g42820.2 (Oryza sativa), 3'ss of exon 9
tgatgaattgtattatcttgtgccgcctatagcacacatct-tcctgattttggctttccaatgacatttccttcttttattgttttgttgtcaaccctagCCAAAGGACAGTCAATACATAACATTAGATGATGGCCGGAGACTCTGCTTGGAGTGTCTGCATACTGCTATTATGGAGACCAATGAATGCCAGCCACTGT
| || | | | || | | | | | | | ||| || | || |||||| | | | ||| || ||| | |||| |||||||||||| ||| | ||||||||||||||||||||||||| |||||| ||||| || ||| ||||| | || ||||| || | |||||||| ||||| |
-atttcatagcaatgtccattcgtagtgaaaacgtattttaattatgaattggtgaatctaatgacttcccttcttttcttttgtttaatctcaatgctagCCAAAGGATAGTAAGTACATAACATTAGATGATGGCCGGAAACTCTGTTTGGAATGCCTGAATACTTCAATAATGGACACAGACGAATGCCAACCACTAT
upper sequence: GRMZM2G342105_T02 (Zea mays), 3'ss of exon 4
lower sequence: GLYMA14G08450.1 (Glycine max), 3'ss of exon 7
--------------------------tgatgaattgtattatcttgtgccgcctatagcacacatcttcctgattttg-gctttccaatgacatttccttcttttattgttttgttgtcaaccctagCCAAAGGACAGTCAATACATAACATTAGATGATGGCCGGAGACTCTGCTTGGAGTGTCTGCATACTGCTATTATGGAGACCAATGAATGCCAGCCACTGT
|||| || | | | | | || ||||| | | | | ||| ||| | | ||| | | | | | ||| || | | ||| || | | || ||| || | | | |||||||||| |||||||| |||||||| || ||||||| ||||| || ||||||||||| || ||
gttagtatggatggagtatatttatctgataaaatattatttgtagtcttgcctagggaa---aggtggatgaacttgtacagtgcaaagtgaatagaatgtaaaatt-ttctctcatcatatgcagTCCCAAGAGGCAGGATATATTGCTCTTAAGGATGGCCGGAAGCTCTGCTTAGAGTGTCTTGATTCTGCTATCATGGATACTAATGAATGCCAACCCCTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gattttggctttccaatgacatttccttcttttattgttttgttgtcaaccctagCCAAAGGACAGTCAATACATAACATTAGATGATGGCCGGAGACTCTGCTTGGAGTGTCTGCATACTGCTATTATGGAGACCAATGAATGCCAGCCACTGT
tcctgat putative branch site (score: 3)
ttcttttattgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgatgaattgtattatcttgtgccgcctatagcacacatcttcctgattttggctttccaatgacatttccttcttttattgttttgttgtcaaccctagCCAAAGGACAGTCAATACATAACATTAGATGATGGCCGGAGACTCTGCTTGGAGTGTCTGCATACTGCTATTATGGAGACCAATGAATGCCAGCCACTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA