Sequence
atgc intronic sequence ATGC exonic sequencegtctgagagtttccctcttcatattggagtttacttttattttgcaatttgtgtcttggttttcaatcatatgtgatcttttattgcagGTTCTTGGAATGATGTTTTCAAGGTTGCTGTTGCATTGTACATAGTAGGCACATTGGTGTGGAATATATTTTCAACTGGGGAGAAA
Basic information
species | Glycine max |
transcript | GLYMA18G46790.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G46790.1 (Glycine max), 3'ss of exon 9
lower sequence: LOC_Os09g39680.1 (Oryza sativa), 3'ss of exon 10
----------------------------------------gtctgagagtttccctcttcatattggagtttacttttattttg-------------caatttgtgtct----tggttttcaatcatatgtgatcttttattg---------cagGTTCTTGGAATGATGTTTTCAAGGTTGCTGTTGCATTGTACATAGTAGGCACATTGGTGTGGAATATATTTTCAACTGGGGAGAAA--------------
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gtagggatgttgaaaaacatggtatctctagaaatgtcaaacaggacagaccatattttaataatgaatttcatgttcattcttgtggaatatgtatcaatgtgtgtttatgctaactttctcttacgtcttaactttcttttttggactgccagGTTCTTGGGATAGTGTGTTTCAGGTGGCTGTGGTATTGTACATAGTAGGGACAGTGGTGTGGAATGTCTTCTCAACTGGAGAGAAAGTTCTTGAATGAGC
upper sequence: GLYMA18G46790.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G046681_T02 (Zea mays), 3'ss of exon 11
-----gtctgagagtttccctcttcatattggagtttacttttattttgcaatttgtgtcttggttttcaatcatatgtgatcttttatt-------gcagGTTCTTGGAATGATGTTTTCAAGGTTGCTGTTGCATTGTACATAGTAGGCACATTGGTGTGGAATATATTTTCAACTGGGGAGAAA--------------
|| | || | || | | || | || || ||| | | | | | ||| ||| || | || |||| |||| ||||||||||| || ||| || ||||| |||||| |||||||||||||| || |||| |||||| | ||||||||||| ||||||
gtcaggttaaaaagaataccccgttgtagcataattataaagcatgttgtatatcat-tttaactttctaataatgtttgttcttatattttaactcacagGTTCTTGGGATAGTGTGTTTAAGGTGTCTGTTGTGTTGTACATAGTAGGAACGGTGGTTTGGAATGTCTTTTCAACTGGAGAGAAAATTCTCGAATAAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttattttgcaatttgtgtcttggttttcaatcatatgtgatcttttattgcagGTTCTTGGAATGATGTTTTCAAGGTTGCTGTTGCATTGTACATAGTAGGCACATTGGTGTGGAATATATTTTCAACTGGGGAGAAA
tcttttatt CT-rich tract
atcttttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgagagtttccctcttcatattggagtttacttttattttgcaatttgtgtcttggttttcaatcatatgtgatcttttattgcagGTTCTTGGAATGATGTTTTCAAGGTTGCTGTTGCATTGTACATAGTAGGCACATTGGTGTGGAATATATTTTCAACTGGGGAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA