Sequence
atgc intronic sequence ATGC exonic sequence...cttgatttgcattagattttttcattccaacttctctgcctctcttattttcttcctcatttacaatttataatactgacagaacatgcttgactcacagAGCTGTACCAGTTGGTGCTGTCTCATATGGTGACATTGATGGGTATCGATACAAGCGAGATGTTTTATTTTGTTATGATTTAAAACTCCCTGACGATTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g04320.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G31960.1 (Glycine max), 3'ss of exon 6
cttgatttgcattagattttttcattccaacttctctgcctc--tcttattttcttcctcatttacaatttataatactgacagaacatgcttgactc--acagAGCTGTACCAGTTGGTGCTGTCTCATATGGTGACATTGATGGGTATCGATACAAGCGAGATGTTTTATTTTGTTATGATTTAAAACTCCCTGACGATTTC
| | |||| ||| || || ||||||| | ||| | | | | | | || | | | | | | || ||| || |||||| |||| ||||||||| | |||||| ||||||||||||||| |||||||| |||||||| ||| ||||||||| ||||||| || | ||||
--ttgtgtgcactag-ttcactctttccaacca-taagccaaaatgacaacaaccaaattagtagcactctctctctgtctaattatgtgattgcttctgtcagAGCCATACCTGTTGGTGCTATTTCATATATGGACATTGATGGGTATAGATACAAGAGAGATGTTGAATTCTGTTATGATCTAAAACTTCCAAAAAGTTTC
upper sequence: Vv11s0016g04320.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G09850.1 (Glycine max), 3'ss of exon 8
cttgatttgcattagattttttcattccaac---ttctctgcctc--tcttattttcttcctcatttacaatttataa-----tactgacagaacatgcttgactcacagAGCTGTACCAGTTGGTGCTGTCTCATATGGTGACATTGATGGGTATCGATACAAGCGAGATGTTTTATTTTGTTATGATTTAAAACTCCCTGACGATTTC
|| ||| ||| || ||||||| | ||| | | ||| | | | | ||| || || | |||| | ||||||| |||| ||||||||| | |||||| |||||||||||| || |||||||| |||||||| ||| ||||||||| ||||||| || | ||||
---------cactag-tttactctttccaacaaaccataagccaaaatgacaaaatctaaataagtagtattttctatctgtctatttctgttgattgctgctgttacagAGCCATACCTGTTGGTGCTATTTCATATTTGGACATTGATGGGCATAGATACAAGAGAGATGTTGAATTCTGTTATGATCTAAAACTTCCAAAAAGTTTC
upper sequence: Vv11s0016g04320.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G08420.1 (Glycine max), 3'ss of exon 6
--cttgatttgcattagattttttcattccaacttctctgcctctcttattt--tcttcctcatttacaatttataatactgacagaacatgcttgactcacagAGCTGTACCAGTTGGTGCTGTCTCATATGGTGACATTGATGGGTATCGATACAAGCGAGATGTTTTATTTTGTTATGATTTAAAACTCCCTGACGATTTC
|| ||| || | | | || | || ||| | | || | || | | |||| ||| |||||| |||||| || |||| ||||||||||| ||||| ||||||||||| ||| |||||||| |||||||| | || ||||||||| ||||||| || | |||||
aactagatcactctttccaaccataagccaaaatgtcaaaattcatatatgtagtactcttttctttttctgtctaattctgttgattgatgctt---tcacaGCGCCATACCGGTTGGTGCTGTTTCATACAAGGACATTGATGGATATAGATACAAGAGAGATGTTCTGTTCTGTTATGATCTAAAACTTCCAAAAGATTT- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattttcttcctcatttacaatttataatactgacagaacatgcttgactcacagAGCTGTACCAGTTGGTGCTGTCTCATATGGTGACATTGATGGGTATCGATACAAGCGAGATGTTTTATTTTGTTATGATTTAAAACTCCCTGACGATTTC
tcatttacaatttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cttgatttgcattagattttttcattccaacttctctgcctctcttattttcttcctcatttacaatttataatactgacagaacatgcttgactcacagAGCTGTACCAGTTGGTGCTGTCTCATATGGTGACATTGATGGGTATCGATACAAGCGAGATGTTTTATTTTGTTATGATTTAAAACTCCCTGACGATTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - -tccaact
- - - - - - - - - - - - - - - - -ctctgcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tactgac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acatgct