Sequence
atgc intronic sequence ATGC exonic sequence...ctcattcttatatcttaatcatacaggtcttactagtgcatctacaatgactgaggattgtatcatgttttgatccttgtttattttgtgaaattaacagTTAATGCCAATTCTAGAAGCATTATATGATGCTCGAAGGATGACAGCTTATCAAATTTACATGTTGTTAATTATACTTCTCATACTTAGTCAAGATACTT
Basic information
species | Glycine max |
transcript | GLYMA10G00550.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G00550.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G04200.1 (Arabidopsis thaliana), 3'ss of exon 8
--------------------------------------------------ctcattcttatatc-ttaatcatacaggtct-tactagtgcatctacaatgactgagg----------attgtatcatgttt-tgatccttgttt--attttgtgaaattaacagTTAATGCCAATTCTAGAAGCATTATATGATGCTCGAAGGATGACAGCTT---ATCAAATTTACATGTTGTTAATTATACTTCTCATACTTAGTCAAGATACTT
| ||| | || |||| || | || | | || | || | || || || |||| || ||||| || || || || | || |||||| ||||| || || || | | ||| | ||| || || ||| | | ||||||| |||||| || ||||| ||||||||||||||||||| |||
gtatgattcataaatgcctctcaataagttccatgggtctatttcattcttttgttccattgtccttaaaagtagaaatccattcctctgttttactaacccttaagatgaagtccttatagtttcatattaatgatctatgctttaatattttttgatggacagTTGATGCCCATCCTGGAGACGCTGTATAACGCTTCAAAGAGAACATCATCTAATCAAATATACATGATGCTAATTGTACTTCTCATACTTAGTCAGGATT---
upper sequence: GLYMA10G00550.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv05s0020g04100.t01 (Vitis vinifera), 3'ss of exon 8
ctcattcttatatct-taatcatacaggtcttact-agtgcatctacaatgactgaggattgtatcatgttttgatccttgtttattttgtgaaattaacagTTAATGCCAATTCTAGAAGCATTATATGATGCTCGAAGGATGACAGCTTATCAAATTTACATGTTGTTAATTATACTTCTCATACTTAGTCAAGATACTT
|||||||| | | | | | || || || | | | |||| || ||| | | | ||||| ||||| | |||||| ||||||| ||||| ||| | || | || ||| |||| ||||| |||| || ||||||| ||||||||||| ||||| ||||| ||||||||||| ||| | |
accattcttaattatatgaggaggcatttcatatttacttgatctgacatagctgcag--cacagctgagtttgacatgtgtttctaccctgaaatcaacagTTGATGCCCATTTTGGAGACCTTGTATAATGCGTCAAGGAGGACATCTAATCAAATCTACATGTTGTTGATTATCCTTCTTATACTTAGTCAGGATTCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgactgaggattgtatcatgttttgatccttgtttattttgtgaaattaacagTTAATGCCAATTCTAGAAGCATTATATGATGCTCGAAGGATGACAGCTTATCAAATTTACATGTTGTTAATTATACTTCTCATACTTAGTCAAGATACTT
ttttgat putative branch site (score: 4)
ttgtttattttgtgaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcattcttatatcttaatcatacaggtcttactagtgcatctacaatgactgaggattgtatcatgttttgatccttgtttattttgtgaaattaacagTTAATGCCAATTCTAGAAGCATTATATGATGCTCGAAGGATGACAGCTTATCAAATTTACATGTTGTTAATTATACTTCTCATACTTAGTCAAGATACTT
ctcattc
- - - - - - - - - tcataca
- - - - - - - - - - - - - - - - ctagtgc
- - - - - - - - - - - - - - - - - - - - - - caatgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tcatgtt