Sequence
atgc intronic sequence ATGC exonic sequencegtaagtctttatttcctagcacaagattgtaataacgccatgctctcatgcagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTATCTGTATTTCTCATCAAAGGAGCCACTTCATATATGGTCTTTACTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G018464_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os01g63890.1 (Oryza sativa), 3'ss of exon 2
--------------------------gtaagtctttatttcctagcacaagattgtaataacgccatgctctcatgcagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTATCTGTATTTCTCATCAAAGGAGCCACTTCATATATGGTCTTTACTA
|| | || ||| | | || ||| ||| |||||| |||||||||||| |||||||||||||||||||||| ||||| |||||||| ||| || ||||||| |||||||| || | || |||||||| |||||| ||
gtatgacatatgctcccctttcagatgtttattgatacttctgctcttatatggatactaatatcatctactcatgtagCTGAAAATGACACACATGATGGGAAGAGAAAGTGCGAAGCCCTCTGGCCAATTTTCCGTATTTCCCATCAAAGAAGTCGCTACATATATGATCTTTATTA
upper sequence: GRMZM2G018464_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os04g55290.1 (Oryza sativa), 3'ss of exon 3
--------------------------gtaagtctttatttcctagcacaagattgtaataacgccatgctctcatgcagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTATCTGTATTTCTCATCAAAGGAGCCACTTCATATATGGTCTTTACTA
|| | || ||| | | || ||| ||| ||||||||||||||||||| | |||||||||||||||||||| ||||| |||||||| ||| || ||||||| |||||||| || | || |||||||| |||||| ||
gtatgacatatgctcccctttcagatgtttattgatacttctgctcttatatggatactaatatcatctactcatgcagCTGAAAATGACACGCATGATGGGAAGAGAAAGTGCGAAGCCCTCTGGCCAATTTTCCGTATTTCCCATCAAAGAAGTCGCTACATATATGATCTTTATTA
upper sequence: GRMZM2G018464_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA05G28440.2 (Glycine max), 3'ss of exon 3
--------------------------------gtaagtctttatttcctagcacaa-gattgtaataacgccatgctctc-atg---cagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTATCTGTATTTCTCATCAAAGGAGCCACTTCATATATGGTCTTTACTA
|| || |||| | ||| || ||||| || || ||| ||||||| ||||||||||||||||| || ||||| ||||| | | ||||| || | ||| | || || | ||||| || ||||| || || ||| |
gttggaattttacatcatgtgcttagtagattttattatgttctttctgaaatcaatgaaattaatagttttatatcctttatgtggcagCTGAGAATGATCCACATGATGGCAAAAGAAAATGTGAGACATTATGGCCAATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTACCA
upper sequence: GRMZM2G018464_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA07G15700.1 (Glycine max), 3'ss of exon 2
------------------------------------gtaagtctttatttcct--agcacaagattgtaataacgccatgctc-tcatg---cagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTATCTGTATTTCTCATCAAAGGAGCCACTTCATATATGGTCTTTACTA
| | | | | || || | | | || |||| || | ||| ||||||| || |||||||||||||| |||||||| ||||| | | |||||||| | ||| | || || | ||||| || ||||| || || || |
gttggaattttatatgtgatacttgcctttctagattttattgtgttctttctgaaacccttgaacttaattgttttgcattccttatgtggcagCTGAGAACGATCCACATGATGGCAAGAGAAACTGTGAGACATTATGGCCTATATTTAAGATTGCACACCAGAAGAGCCGCTACATATTTGACCTCTATCA
upper sequence: GRMZM2G018464_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv05s0020g01520.t01 (Vitis vinifera), 3'ss of exon 2
----------------------------------------gtaagtc-tttatttcctag---cacaagattg-taataacgccatgct------ctcatgcagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTATCTGTATTTCTCATCAAAGGAGCCACTTCATATATGGTCTTTACTA
| ||| || ||| || | || | | ||| || || | || | ||||||||||||| ||||||||||| |||||||| ||||| || || ||||| ||| || || | ||||| | ||||| | || | || ||||||| |
gttattctctttttctcatgcatacagctctgaatgttgtctttgtcgcttgtttgctgaacttataaaactaacaatgacaccgttctatgtcttttgaacagCTGAAAATGACCCACATGATGGTAAGAGAAAATGTGAGGCACTATGGCCGATTTTCAAAATAGCACATCAGAAGAGCCGTTATATTTTTGATCTTTACCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaagtctttatttcctagcacaagattgtaataacgccatgctctcatgcagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTATCTGTATTTCTCATCAAAGGAGCCACTTCATATATGGTCTTTACTA
taataac putative branch site (score: 1)
tgctctc putative PPT
attgtaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtctttatttcctagcacaagattgtaataacgccatgctctcatgcagCTGAAAATGATCCACATGATGGGAAGAGAAAGTGTGAAGCTCTCTGGCCTATTATCTGTATTTCTCATCAAAGGAGCCACTTCATATATGGTCTTTACTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG