Sequence
atgc intronic sequence ATGC exonic sequencegtacgttttctttgctagttcacatcttatagagcgtacgaatattataaaaatatataatttcatttttgtcttgtttgtacacgcagATTGTGATTGGAAGGCAAGGACAGGAAATGTGTGCGTGGCATCTTTTGATTGGTCGTGCAGTGGTATCTGTAAGTCGGTGGAGAGAATGAGAGATATACA
Basic information
species | Glycine max |
transcript | GLYMA09G36830.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G36830.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g65590.1 (Oryza sativa), 3'ss of exon 8
----------------------------gtacgttttctttgctagttcacatcttatagagcgtacgaatattataaaaatatataatttcatt-----tttgtcttg---tttgtacacgcagATTGTGATTGGAAGGCAAGGACAGGAAATGTGTGCGTGGCATCTTTTGATTGGTCGTGCAGTGGTATCTGTAAGTCGGTGGAGAGAATGAGAGATATACA
| | | ||| | |||||| | | ||| | |||| || | | | | ||| || ||| | | | ||| || |||||||| || |||||| | | || || ||||||||||| || || ||||||||||||||||| |||| ||||| ||||| || |||| | || ||
gtcaatctcagctatcgattcttttcatgatcatcttcctagctagtggtactactccagatca---gaatttttcagggttttttgttttgttttgaactttctttcgcatttttcactggcagATTGCGAGTGGAAGAAGCGAGCTGGGAACGTGTGCGTGGCGTCGTTCGATTGGTCGTGCAGTGGGGTCTGCAAGTCAGTGGACAGGATGAAGCACATCCA
upper sequence: GLYMA09G36830.1 (Glycine max), 3'ss of exon 7
lower sequence: GRMZM2G119265_T01 (Zea mays), 3'ss of exon 8
gtacgttttct--ttgctagttcacatc-ttatagagcgtacgaatattataaaaatatataatttcatttttgtcttgtttgtacacgcagATTGTGATTGGAAGGCAAGGACAGGAAATGTGTGCGTGGCATCTTTTGATTGGTCGTGCAGTGGTATCTGTAAGTCGGTGGAGAGAATGAGAGATATACA
|| || | || || | || | ||| | | | ||||| | | | | | || || ||||| || || |||||| | | || || ||||||||||| || || || ||||||||||| || |||||||||||||||| | ||| | | || ||
gtgggtcatgaaactgacagccagcgtcacccctcctctcctgaacaattcacctatatacactgcc-tagtgactctgactgcgtgtgcagACTGCGAGTGGAAGAAGCGAGCCGGGAACGTGTGCGTGGCGTCCTTCGACTGGTCGTGCAGCGGCGTCTGTAAGTCGGTGGACCGGATGCGCCACATCCA
upper sequence: GLYMA09G36830.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv18s0089g01040.t01 (Vitis vinifera), 3'ss of exon 7
gtacgttttctttgctagt-tcacatct-tatagagcgtacgaatattataaaaatatataatttcatttttgtctt---------------gtttgtacacgcagATTGTGATTGGAAGGCAAGGACAGGAAATGTGTGCGTGGCATCTTTTGATTGGTCGTGCAGTGGTATCTGTAAGTCGGTGGAGAGAATGAGAGATATACA
| |||||||| | | || | |||| | | | ||| ||| | | | ||| ||||| | | | || | | |||||| || |||||| || |||||||| || |||||||| |||||||||||||||||||| || || ||||| |||||||| |||| ||| | ||
------tgattttgctagaattatatatatatatatctaatgaaagttactactttttgatgttttttttttttttcctaagataacgttggatgtgaatatttagATTGCGAATGGAAGACACAAGTTGGAAATGTATGTGTGGCATCCTTTGATTGGTCGTGCAGTGGAATATGCAAGTCTGTGGAGAGGATGAAGGATGTGCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgtacgaatattataaaaatatataatttcatttttgtcttgtttgtacacgcagATTGTGATTGGAAGGCAAGGACAGGAAATGTGTGCGTGGCATCTTTTGATTGGTCGTGCAGTGGTATCTGTAAGTCGGTGGAGAGAATGAGAGATATACA
aatattataaaaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacgttttctttgctagttcacatcttatagagcgtacgaatattataaaaatatataatttcatttttgtcttgtttgtacacgcagATTGTGATTGGAAGGCAAGGACAGGAAATGTGTGCGTGGCATCTTTTGATTGGTCGTGCAGTGGTATCTGTAAGTCGGTGGAGAGAATGAGAGATATACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA