Sequence
atgc intronic sequence ATGC exonic sequence...cagagagtttcttgttcatggctattgctcagagcacataaggtttcttgttcatttaattatatgtgcctgacacattatgtcatgtttatcatttcagAAAGGAGTAGCTCAACAGGAGCATGATTGTATTCCGGATGAACATTATGTGCAGACATTATTTTCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G152057_T01 (Zea mays), 3'ss of exon 8
lower sequence: LOC_Os01g50040.1 (Oryza sativa), 3'ss of exon 8
cagagagtttcttgttcat----ggctattgctcagagcacataaggtttcttgttcatttaattatatgtgcctgacacattatgtc-atgtttatcatttcagAAAGGAGTAGCTCAACAGGAGCATGATTGTATTCCGGATGAACATTATGTGCAGACATTATTTTCT
|| | | || || ||| ||||||| | |||| || |||||||| ||| | | | |||| |||| || || ||| | | | || ||||||||| ||| | |||||||||||| ||||| |||||||| ||||||||||||||||||||
atgaaatgctaccgtcaatttcaagctgttgctcacatcaca-aaagtttcttgca-attgagctcttca---ctgagacatgatatccatgctaaaccttgcagAAAGGATCTACTCGAATGGAGCATGATTGCATTCCAGATGAACACTATGTGCAGACATTATTTTCA
upper sequence: GRMZM2G152057_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA09G00910.1 (Glycine max), 3'ss of exon 7
cagagagtttcttgttcatggctattgctcagagcaca-taaggtttcttgttcatttaattatatgtgcctgacacattatgtcatgtttatcatttcagAAAGGAGTAGCTCAACAGGAGCATGATTGTATTCCGGATGAACATTATGTGCAGACATTATTTTCT
| | || | | | | |||| || | || | || | ||| ||| || | | | | | || ||| || | | || || | ||| || |||| |||||||||| |||||||| |||||||||||||| || |
------atattgtgatgctattcagtactcatttcataatatagctttcttttcttttctttttctatactgataattgcttgctatggttttggtgcaagtgcagAA-ACTTCAGAAGCAGCACAATTGTATTCCAGATGAACACTATGTGCAGACATTGCTTGCA
upper sequence: GRMZM2G152057_T01 (Zea mays), 3'ss of exon 8
lower sequence: GLYMA15G11750.1 (Glycine max), 3'ss of exon 7
cagagagtttcttgttcatggctattgctcagagcaca-taaggtttcttgttcatttaattatatgtgcctgacacattatgtcatgtttatcatttcagAAAGGAGTAGCTCAACAGGAGCATGATTGTATTCCGGATGAACATTATGTGCAGACATTATTTTCT
| | || | | | | |||| | | || | || | ||| ||| || | | | | | || ||| || | | || || | ||| || |||| |||||||||| |||||||| |||||||||||||| || |
------atattgtgatgctactcagtactcattttataatatagctttcttttcttttctttttcaatactgataatttcttgctatggttttggtgcaagtgcagAA-ACTTCAGAAGCAGCACAATTGTATTCCAGATGAACACTATGTGCAGACATTGCTTGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcttgttcatttaattatatgtgcctgacacattatgtcatgtttatcatttcagAAAGGAGTAGCTCAACAGGAGCATGATTGTATTCCGGATGAACATTATGTGCAGACATTATTTTCT
gcctgac putative branch site (score: 3)
tcatttc putative PPT
ttcatttaattatatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cagagagtttcttgttcatggctattgctcagagcacataaggtttcttgttcatttaattatatgtgcctgacacattatgtcatgtttatcatttcagAAAGGAGTAGCTCAACAGGAGCATGATTGTATTCCGGATGAACATTATGTGCAGACATTATTTTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
- - - - - - -gttcatg
- - - - - - - - - - -ctattgc
- - - - - - - - - - - - - - - - -gcacata
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcctga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgttt