Sequence
atgc intronic sequence ATGC exonic sequencegtgtgtagattggaatgcttgatccaagataaaattccactctcttttgcgcacttaataacatccatcgatgatacaaacttgatcaaaataccttaaggcttgctatttacggcactcttgtaatattataccgtctcttgctttttgacatcagGTTGATTCCCAATACATTCTTGCACACATTTCAGATATCGAAGACTAGTGAGTACAATCCTCTTGATCTATTTTCTGGGTCAAAAGAGAGAATATGCATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G067299_T06 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os04g56580.1 (Oryza sativa), 3'ss of exon 6
gtgtgtagattggaatgcttgatccaagataaaattccactctcttttgcgcacttaataacatccatcgatgatacaaacttgatcaaaataccttaaggcttgctatttacggcactcttgtaatattataccgtctcttgc-tttttgacatcagGTTGATTCCCAATACATTCTTGCACACATTTCAGATATCGAAGACTAGTGAGTACAATCCTCTTGATCTATTTTCTGGGTCAAAAGAGAGAATATGCATG----------------------------------
| | || | || || | | || | | || ||| |||| | || ||| |||| | ||||| ||| ||| || | ||| || |||||||||||||||||||||| ||||| ||| |||| || ||| |||||||||| |||||||| |||||| |||
-------------------------------------------------------------------------------------ttcatattcatt-----ctgtcactcttggaagt--tgcaatgctatatcatcccttttgcttttcaaatcagcttggttctaaacatatttttaaacacatttcagATATCGAAGACAAGTGAATACGATCCCCTAGATTTATTTTCTGGATCAAAAGAAAGAATACATATGGCTATCAAGTCATTTTTTTCAACTCCTCAGAACA
upper sequence: GRMZM2G067299_T06 (Zea mays), 3'ss of exon 5
lower sequence: AT5G42810.1 (Arabidopsis thaliana), 3'ss of exon 5
gtgtgtagattggaatgcttgatccaagataaaattccactctcttttgcgcacttaataacatccatcgatgatacaaacttgatcaaaataccttaaggcttgctatttacggcactcttgtaatattataccgtctcttgctttttgacatcagGTTGATTCCCAATACATTCTTGCACACATTTCAGATATCGAAGACTAGTGAGTACAATCCTCTTGATCTATTTTCTGGGTCAAAAGAGAGAATAT-GCATG---------------------------------
| || || | ||| | | | ||| ||| | |||| | | || | | | || | |||| | | || | |||||||| | || |||||| ||||||||||||| || ||||| ||||||||||| | | | | |
----------------------------------------------------------------------------------------------gtaaaagcaagtcattgttagta----taaaatctta-atggtctatagattgtgatttgctga--aatgtctaataagtatgtcaccattctacagATATCTGAAGAAAGCGAGTACGATCCTCTTGATCTCTTCTCTGGATCAAAAGAGAGTGTTTTGGAAGCTATAAAAGCTTTATATTCCACTCCTCAAAACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgctatttacggcactcttgtaatattataccgtctcttgctttttgacatcagGTTGATTCCCAATACATTCTTGCACACATTTCAGATATCGAAGACTAGTGAGTACAATCCTCTTGATCTATTTTCTGGGTCAAAAGAGAGAATATGCATG
ttttgac putative branch site (score: 3)
ccgtctcttgcttttt CT-rich tract
tcttgtaatattata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgtagattggaatgcttgatccaagataaaattccactctcttttgcgcacttaataacatccatcgatgatacaaacttgatcaaaataccttaaggcttgctatttacggcactcttgtaatattataccgtctcttgctttttgacatcagGTTGATTCCCAATACATTCTTGCACACATTTCAGATATCGAAGACTAGTGAGTACAATCCTCTTGATCTATTTTCTGGGTCAAAAGAGAGAATATGCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA