Sequence
atgc intronic sequence ATGC exonic sequencegtttgtgattattgctcacccgaaattaaagtttcaccatatattttccattaattattcaaacacgtgcagGTACTGGAATTATTTGAGGAAACAAACATTTGTTTTGGAGTCATATGTAACCAAAGTTAATCAAGTAATGAACCGTGCATTATTTGCTGTTCACTGTTAT
Basic information
species | Glycine max |
transcript | GLYMA01G01130.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G01130.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G061419_T01 (Zea mays), 3'ss of exon 10
----------------------------gtttgtgattattgctcacccgaaattaaagtttcaccatatattttccattaattattcaaacacgtgcagGTACTGGAATTATTTGAGGAAACAAACATTTGTTTTGGAGTCATATGTAACCAAAGTTAATCAAGTAATGAACCGTGCATTATTTGCTGTTCACTGTTAT
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atactttgggtttcttttctgtgcacatgtttatgctaaaccaatgtatgcatcttaactaatactgttttcttcatatacatgtttgtttttcatgcagATACTGGAATTACCTCAGGAAACAAACTTTTGTTCTCGAGTCATATGTATCGAATGTAAACTGGATGATGAACCGTGCATTATTTACAAGCCATTGCTAT
upper sequence: GLYMA01G01130.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 10
gtttgtgattattgctcacccgaaattaaagtttcaccatatattttccattaattattca-------aacacgtgcagGTACTGGAATTATTTGAGGAAACAAACATTTGTTTTGGAGTCATATGTAACCAAAGTTAATCAAGTAATGAACCGTGCATTATTTGCTGTTCACTGTTAT
|||| |||| | || | || || |||||| |||| || || || || ||| || ||||||||||| |||||||| |||||||||||| | || ||||| | | || ||||| || ||||| |||||||||||| || ||||| |||
gtttttgatattcccttttcaaaatttgttttttcacatggtattccttgttgatcttttccctttttgacttgtgtagATACTGGAATTACTTGAGGAAGCAAACATTTGTTCTTGAATCATACATTTCGAAGGTTAACTGGGTTATGAATCGTGCATTATTTTCTTCCCACTGCTAT
upper sequence: GLYMA01G01130.1 (Glycine max), 3'ss of exon 9
lower sequence: PP1S194_131V6.1 (Physcomitrella patens), 3'ss of exon 11
----------------------------------------------------------------gtttgtgattattgc--tcacccgaaattaaagtttcaccatat-attttccattaattattcaaacacgtgcagGTACTGGAATTATTTGAGGAAACAAACATTTGTTTTGGAGTCATATGTAACCAAAGTTAATCAAGTAATGAACCGTGCATTATTTGCTGTTCACTGTTAT
| |||| |||| | | | | ||| | || | | | | |||| | | ||||||||||||||||||||| |||||||||| |||| |||| | || || | |||| | |||||||| | ||| || | | || ||||
gtattattcttatgttgcctcgagcatttgcttgaatattagtgagcagtttttggctgaaagtaatggtgagcattgtggtttcttgcagttagacttcttacgtgtcgaaacttaccccttatgctttt-cttgcagGTACTGGAATTATTTGCAGAAACAAACAATTGTACTGGAAACGTACAATACAACGTATAATTACTGGATGAACCGCGGATTGTTCTTTTTGCATTGTTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acccgaaattaaagtttcaccatatattttccattaattattcaaacacgtgcagGTACTGGAATTATTTGAGGAAACAAACATTTGTTTTGGAGTCATATGTAACCAAAGTTAATCAAGTAATGAACCGTGCATTATTTGCTGTTCACTGTTAT
atatattttccattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtgattattgctcacccgaaattaaagtttcaccatatattttccattaattattcaaacacgtgcagGTACTGGAATTATTTGAGGAAACAAACATTTGTTTTGGAGTCATATGTAACCAAAGTTAATCAAGTAATGAACCGTGCATTATTTGCTGTTCACTGTTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT