Sequence
atgc intronic sequence ATGC exonic sequencegtttactctagttccagtgtttcctgtgcgtgtgtccgttgaaaataacgcaatacctgtgatttcttacactactgtttcatgactcttttgacagATTACTGCATGCAAGCTATTGCCAAATCTGGATTTGTGGAGCCAACACCTATTCAATCTCAAGGTTGGCCTATGGCTTTGAAGGGTAGGGACCTGATTGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G362850_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os01g68320.4 (Oryza sativa), 3'ss of exon 2
-------gttt---actctagttccagtgtttcctgtg----cgtgtgtccgttgaaaataacgcaatacctgt------gatttcttacactactgtttcatgactcttttgacagATTACTGCATGCAAGCTATTGCCAAATCTGGATTTGTGGAGCCAACACCTATTCAATCTCAAGGTTGGCCTATGGCTTTGAAGGGTAGGGACCTGATTGG
||| | |||| | | | | ||| || | || |||| |||| | | | | | | ||| | ||| | | | |||| ||||||||||| |||||||| || ||||| |||||| || ||||| || |||||||| || ||||||||||| |||||||||||||| |||||| |||| ||
gtttgctatttcaaatcggggttctgttaactgttatagcaatctgtatctctggataatacggcaacatgtcttggatgaaataatcgttctatttttttttcatt-ttttaacagATTACTGTATGCAAGCAATAGCCAAGAGTGGATTCGTAGAGCCCACGCCTATTCAGTCACAAGGTTGGCCAATGGCTTTGAAGGGCAGGGACATGATCGG
upper sequence: GRMZM2G362850_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT5G63120.1 (Arabidopsis thaliana), 3'ss of exon 2
gtttactctagttccagtgtttcctgtgcgtgtgtccgttgaaaataacgcaatacctgtgatttcttacactactgtttcatgactcttttgacagATTACTGCATGCAAGCTATTGCCAAATCTGGATTTGTGGAGCCAACACCTATTCAATCTCAAGGTTGGCCTATGGCTTTGAAGGGTAGGGACCTGATTGG
|| | | || | || | | | | | ||| | | ||| || |||||| || || ||| | | | || |||| || | |||| ||||| |||| |||||| |||||||||||||| ||| |||| || ||||| ||||| |||||||||||||| |||||||
--gtattttgattggattggtcatagagttt---ccagttcatttatatctaatt----tgggttcttagtttaatggttcct--tttatctgttagATAACATTCTTGAAGCAATTGCTAAATTGGGATTTACTGAGCCAACACCTATACAAGCTCAGGGATGGCCGATGGCGTTGAAGGGTAGGGATTTGATTGG
upper sequence: GRMZM2G362850_T01 (Zea mays), 3'ss of exon 3
lower sequence: PP1S59_81V6.1 (Physcomitrella patens), 3'ss of exon 3
-------gtttactctagttccagtgtttcctgtgcgtgtgtccgttgaaaataacgcaatacctgtgatttcttacactactgtttcatgactcttttgacagATTACTGCATGCAAGCTATTGCCAAATCTGGATTTGTGGAGCCAACACCTATTCAATCTCAAGGTTGGCCTATGGCTTTGAAGGGTAGGGACCTGATTGG
|| | | | | | |||||| ||| | ||| | || | | | | | ||| | || | ||||||| |||| | | || | || || |||||||||| |||||||| | ||||| ||||| |||||||||||||| | ||| |||| ||
ggacactgtgtgat-tgatcgggatcggtcctgttggtggtggcattgggtttgtggcgctgatcacg--ctgcggcggttgtgtgtt-tgggaaatggagcagATTATGTGCTGCATGAGGTGCTGAAGGCAGGGTTCACGGAGCCAACAGCTATTCAAGCGCAAGGCTGGCCCATGGCTTTGAAGGGGCGCGACTTGATCGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaataacgcaatacctgtgatttcttacactactgtttcatgactcttttgacagATTACTGCATGCAAGCTATTGCCAAATCTGGATTTGTGGAGCCAACACCTATTCAATCTCAAGGTTGGCCTATGGCTTTGAAGGGTAGGGACCTGATTGG
ttcttac putative branch site (score: 2)
ctctttt putative PPT
atttctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttactctagttccagtgtttcctgtgcgtgtgtccgttgaaaataacgcaatacctgtgatttcttacactactgtttcatgactcttttgacagATTACTGCATGCAAGCTATTGCCAAATCTGGATTTGTGGAGCCAACACCTATTCAATCTCAAGGTTGGCCTATGGCTTTGAAGGGTAGGGACCTGATTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG