Sequence
atgc intronic sequence ATGC exonic sequence...ttctttccgaattggatctgagcttatgaaatttatatttttctcttttgaaaaccattgctggtattgaatcattcttccctttcaaaatctggtacagAAAACAGCCCTTGCGTGTGCACAGCATGGTAAAATACGCAGCAATAGCCCGGGGGGACGCGGAGATATTCATGAAATTCGCAAAGTGTGGCTACAAGGAG
Basic information
species | Glycine max |
transcript | GLYMA06G38490.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G38490.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os02g56170.1 (Oryza sativa), 3'ss of exon 2
--ttctttccgaattg---gatctgagcttatgaaatttatatttttctcttttgaaaaccattgctggtattgaatcattcttccctttcaaaatctggtacagAAAACAGCCCTTGCGTGTGCACAGCATGGTAAAATACGCAGCAATAGCCCGGGGGGACGCGGAGATATTCATGAAATTCGCAAAGTGTGGCTACAAGGAG
| ||| | ||| | | | || || | | || ||| | ||| | || | | | || || | | | || ||| || || ||| |||||||| |||||||||| ||||| || |||||||| || ||||| | || ||||||||||||||||| | ||| |||||||||
cttcatttgacagttgtccgtttccatctattgtagcatgtaatttgcaagttttggatttatcg-tactgttatatttatatgttttgcttggattc----cagGAAGCAACCCCTGCGTGTGTACAGCATGGTGAAATATGCCGCAATAGCACGAGGGGATGTAGAAATATTCATGAAATTCGCTAGAGCTGGATACAAGGAG
upper sequence: GLYMA06G38490.1 (Glycine max), 3'ss of exon 2
lower sequence: EFJ19025 (Selaginella moellendorffii), 3'ss of exon 2
ttctttccgaattggatctgagcttatgaaatttatatttttctcttttgaaaaccattgctggtattgaatcattcttccctttcaaaatctggtacagAAAACAGCCCTTGCGTGTGCACAGCATGGTAAAATACGCAGCAATAGCCCGGGGGGACGCGGAGATATTCATGAAATTCGCAAAGTGTGGCTACAAGGAG
| || | | ||| | | | || | ||| |||| ||| |||| || || || || |||| |||| || || |||||||| || || || ||||||||||| |||||||||||||||| || |||||||||
------------------------------------------gtacgcgaaagtctttctctgcgagcggcaaaaactaacttttgtctccctgg--cagGAAACGTCCGTTACGGGTCTACAGTATGGCGAAGTATGCAGCAATTGCTCGTGGCGACGCGGAGATCTTCATGAAATTCGCAAGAGCGGGTTACAAGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttgaaaaccattgctggtattgaatcattcttccctttcaaaatctggtacagAAAACAGCCCTTGCGTGTGCACAGCATGGTAAAATACGCAGCAATAGCCCGGGGGGACGCGGAGATATTCATGAAATTCGCAAAGTGTGGCTACAAGGAG
tttcaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttctttccgaattggatctgagcttatgaaatttatatttttctcttttgaaaaccattgctggtattgaatcattcttccctttcaaaatctggtacagAAAACAGCCCTTGCGTGTGCACAGCATGGTAAAATACGCAGCAATAGCCCGGGGGGACGCGGAGATATTCATGAAATTCGCAAAGTGTGGCTACAAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - -gcttatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - ccattgc