Sequence
atgc intronic sequence ATGC exonic sequence...agaactattgtcactggatatgtcctatgtttgtgtgtgattttcatactgattttgtataagagactcggttagatacatttgtgatttgaaataccagATTCGACCAGATAGGCAAACACTATTATGGAGTGCTACATGGCCAAGGGAGGTTGAAACTCTGGCAAGGCAGTTTCTGCGCAACCCATACAAG
Basic information
species | Glycine max |
transcript | GLYMA05G02590.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G02590.1 (Glycine max), 3'ss of exon 5
lower sequence: AT5G63120.1 (Arabidopsis thaliana), 3'ss of exon 5
---------------------------------------------------------agaactattgtcactggatatgtcctatgttt---gtgtgtgattttcatactgattttg---tataagagactcggttagatacat----ttgtgatttgaaatac-cagATTCGACCAGATAGGCAAACACTATTATGGAGTGCTACATGGCCAAGGGAGGTTGAAACTCTGGCAAGGCAGTTTCTGCGCAACCCATACAAG
| | ||| | | | |||| | ||| || || | | || | | || | | | || | | | ||| || | |||| || | | ||||| ||||| ||||| |||||||| | |||||||| ||||||||| | |||||||||||||| || ||||||||||| || | ||||| |||
gtatgtttgtactttctccaaagctatcatgtagtgtctttaaggaaagggtggttgaccaacattattagtcgatagattttatcttcccagtttattgttctgttgctaaataagaaccatcacggcttttgttcagaacttgagattgttccttatttttcacagATCCGACCTGATAGACAAACACTTCTTTGGAGTGCAACATGGCCACGAGAGGTTGAAACTCTTGCCAGGCAGTTTCTACGAGATCCATATAAG
upper sequence: GLYMA05G02590.1 (Glycine max), 3'ss of exon 5
lower sequence: Vv17s0000g09130.t01 (Vitis vinifera), 3'ss of exon 5
agaactattgtcactggatatgtcctatgtttgtg-tgtgattttcatactgattttgtataagagactcggttagatacatttgtgatttga-aataccagATTCGACCAGATAGGCAAACACTATTATGGAGTGCTACATGGCCAAGGGAGGTTGAAACTCTGGCAAGGCAGTTTCTGCGCAACCCATACAAG
| ||||| | | | |||||| | | | || | | || || || | | ||||| || | | || ||| ||||| ||||||||||| || ||| ||| |||||||| ||||||||||||||||| |||||||| || |||||||| | || || |||||||||
atcttctcaagaactgggtgta-ctgatgtttttaacataaaaatccttaaaaaaatg-atgagctttggagcttaatacagatgagttctgttaattacagATCCGACCAGATAGACAGACATTATACTGGAGTGCCACATGGCCAAGGGAGGTGGAAACTCTAGCGAGGCAGTTCTTACGTAATCCATACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atactgattttgtataagagactcggttagatacatttgtgatttgaaataccagATTCGACCAGATAGGCAAACACTATTATGGAGTGCTACATGGCCAAGGGAGGTTGAAACTCTGGCAAGGCAGTTTCTGCGCAACCCATACAAG
tactgat putative branch site (score: 2)
attttgtataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agaactattgtcactggatatgtcctatgtttgtgtgtgattttcatactgattttgtataagagactcggttagatacatttgtgatttgaaataccagATTCGACCAGATAGGCAAACACTATTATGGAGTGCTACATGGCCAAGGGAGGTTGAAACTCTGGCAAGGCAGTTTCTGCGCAACCCATACAAG
- - - - - -cactgga
- - - - - - - - - - - -cctatgt
- - - - - - - - - - - - - - - - gtgtgtg