Sequence
atgc intronic sequence ATGC exonic sequencegtattagaataatatttgttctcttgtatgcttatcatttgtcaccgtattctttctgattggattcctttttatctgaggttaatgtttgttgttacagGGATGTGATTGTTTGGGATACATCAAGTATTTTGATGCTCACTTCACAAATTTCACTGGTGGGGTGGAAACAATTGAAAATTGTGTATGTTTGCATGAAG
Basic information
species | Glycine max |
transcript | GLYMA06G18810.2 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G18810.1 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os04g40040.1 (Oryza sativa), 3'ss of exon 7
gtattagaataatatttgttctcttgtatgcttatcatttgtcaccgtattctttctgattggattcctttttatctgaggttaatgtttgttgttacagGGATGTGATTGTTTGGGATACATCAAGTATTTTGATGCTCACTTCACAAATTTCACTGGTGGGGTGGAAACAATTGAAAATTGTGTATGTTTGCATGAAG
|| | || | | || |||| | ||| | | | || | | | | || | ||| || || |||||||||| ||||| || | ||| |||||||||||||| |||||||| ||||| || ||||| |||||||||||||| |||||||||||||||||||| |
---------------gtgcttgctcagttcttaatgattttttacc---tccagagagttttaactttcatctgactattatatgcctttttttttgtagGGATGTGACTGTTTAGGTTTCATAAAGTATTTTGATGCACACTTCACGAATTTTACGGGTGGTGTGGAAACAATTGAGAATTGTGTATGTTTGCATGAGG
upper sequence: GLYMA06G18810.1 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G147884_T01 (Zea mays), 3'ss of exon 6
gtattagaataatatttgttctcttgtatgcttatcatttgtcac-cgtattctttctgattggattcctttttatctgaggttaatgtttgttgttacagGGATGTGATTGTTTGGGATACATCAAGTATTTTGATGCTCACTTCACAAATTTCACTGGTGGGGTGGAAACAATTGAAAATTGTGTATGTTTGCATGAAG
|| |||| | ||||| ||| ||| |||| | | | | ||||| ||| || | | ||| |||| ||| |||| |||||||| ||||| ||||| ||||| || ||||||||||| || |||||||| ||||||||||| ||||| |||||||| || ||||| ||||||||||| |
-----gttattttattcagt-tcttg-atgtgtatactttgacgttcaaaatttttct--ttgatttgactatgctct----ttaaccttt-ttgt-gcagGGATGCGATTGCTTGGGCTACATAAAATATTTTGATGCACATTTCACAAACTTCACTGGTGGTGTGGAGACAATTGAGAACTGTGTTTGTTTGCATGAGG
upper sequence: GLYMA06G18810.1 (Glycine max), 3'ss of exon 6
lower sequence: Vv17s0000g09100.t01 (Vitis vinifera), 3'ss of exon 6
--------------gtattagaataatatttgttctcttgtatgcttatcatttgtcaccgtattctt-tctga--ttggattcctttttatctgaggttaatgtttgttgttacagGGATGTGATTGTTTGGGATACATCAAGTATTTTGATGCTCACTTCACAAATTTCACTGGTGGGGTGGAAACAATTGAAAATTGTGTATGTTTGCATGAAG
| || |||| | || || ||| ||| | | || || || | || | ||| | | || | | | | | || | |||||||||||||||| | || | ||||| || |||||||| ||||| ||||| |||||||| || || ||||| |||||||||||||| |||||||||||||
gtctataaaactatttcttcatgtaattgtccttaaattttat-tttaccttgtggaactttactattgtttgaatctaaaagatcttctgctttaaaatgaaatt-atgaccacagGGATGTGATTGTCTAGGGTTTATCAAATACTTTGATGCCCACTTTACAAACTTCACTGGAGGTGTTGAAACGATTGAAAATTGTGTTTGTTTGCATGAAG
upper sequence: GLYMA06G18810.1 (Glycine max), 3'ss of exon 6
lower sequence: PP1S178_54V6.1 (Physcomitrella patens), 3'ss of exon 7
gtattagaataatatttgttctcttgtatgctt-atcatttgtcaccgt-attctttctg-attggattccttttt-atctgag-gttaatgtttgttgttacagGGATGTGATTGTTTGGGATACATCAAGTATTTTGATGCTCACTTCACAAATTTCACTGGTGGGGTGGAAACAATTGAAAATTGTGTATGTTTGCATGAAG
|| | || | | || | || | || ||| | ||| ||| || | |||||| || | ||| | | || | ||||||||||||||| |||| ||||||||||||||||| || || || |||||| ||| || || |||||||| ||||| ||||| || |||||||||
-----agtcaactacacaatattttaaagactagaacagttgacgtgaagattttttatgcaatggatttgttgaggagttgattatcactgaaaagatgtgcagGGATGTGATTGTCTGGGCCTGATCAAGTATTTTGATGCCCATTTTACCAATTTCCATGGAGGAGTTGAAACAATCGAAAACTGTGTCTGCATGCATGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgtattctttctgattggattcctttttatctgaggttaatgtttgttgttacagGGATGTGATTGTTTGGGATACATCAAGTATTTTGATGCTCACTTCACAAATTTCACTGGTGGGGTGGAAACAATTGAAAATTGTGTATGTTTGCATGAAG
tttttatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattagaataatatttgttctcttgtatgcttatcatttgtcaccgtattctttctgattggattcctttttatctgaggttaatgtttgttgttacagGGATGTGATTGTTTGGGATACATCAAGTATTTTGATGCTCACTTCACAAATTTCACTGGTGGGGTGGAAACAATTGAAAATTGTGTATGTTTGCATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA