Sequence
atgc intronic sequence ATGC exonic sequence...cacctttttctttcctgaagccaggtagatcagatgctcttttttgtaaatttacccagtggtaagccaactgaatttaagctcatgggtttgatggaagCTTAGCAGAGATTGAGAAAATCTATGAGATAGCAGTCAATGGTTCAGATGATGAGAAGATATCTGCTGCAGCAATTCTTTGTGGGGCTTCTCTAGTTCGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0104g00390.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA19G00780.1 (Glycine max), 3'ss of exon 6
-cacctttttctttcctgaagccaggtagatcagatgctcttttttgtaaatttacccagtggtaagccaactgaatttaagctcatgggtttgatggaagCTTAGCAGAGATTGAGAAAATCTATGAGATAGCAGTCAATGGTTCAGATGATGAGAAGATATCTGCTGCAGCAATTCTTTGTGGGGCTTCTCTAGTTCGT
||| ||| | ||||| |||| |||||| |||||||||||| ||||||| |||||| |||||||| ||||||||||||||||| ||| | | |||||||||||||||||||||||||||| | ||| | ||| ||||||| || ||||| || |||||||||||||| | |||||||||||||| ||| |||| |||
acacttttctgtttccggaagtcaggtatatcagatgctctattttgtatatttact-agtggtaatgcaactgaatttaagctcgtggatgtaatggaagCTTAGCAGAGATTGAGAAAATATTTGAATTTGCAATCAATGGCTCGGATGAAGAAAAGATATCTGCTGCTACCATTCTTTGTGGGGCATCTTTAGTACGT
upper sequence: Vv07s0104g00390.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA05G09220.1 (Glycine max), 3'ss of exon 8
-cacctttttctttcctgaagccaggtagatcagatgctcttttttgtaaatttacccagtggtaagccaactgaatttaagctcatgggtttgatggaagCTTAGCAGAGATTGAGAAAATCTATGAGATAGCAGTCAATGGTTCAGATGATGAGAAGATATCTGCTGCAGCAATTCTTTGTGGGGCTTCTCTAGTTCGT
||||||| | |||| ||||| |||||| ||| |||||||| ||||||| |||||| |||||||| ||||||||||||||||||||| | | |||||||||||||||||||||||||| | | ||| | ||| |||| || || ||||| || |||||||||||||| | |||||||||||||| ||| |||| |||
acacctttctgtttcatgaagtcaggtatatccgatgctctattttgtatatttact-agtggtaatgcaactgaatttaagctcatggatgtaatggaagCTTAGCAGAGATTGAGAAAGTATTTGAATTTGCAATCAAAGGCTCGGATGAAGAAAAGATATCTGCTGCTACCATTCTTTGTGGGGCATCTTTAGTACGT
upper sequence: Vv07s0104g00390.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA03G30760.1 (Glycine max), 3'ss of exon 10
---------cacctttttc-tttcctgaagccaggtagatcagatgctcttttttgtaaatttacccagtggtaagccaactgaatttaagctcatgggttt-gatggaagCTTAGCAGAGATTGAGAAAATCTATGAGATAGCAGTCAATGGTTCAGATGATGAGAAGATATCTGCTGCAGCAATTCTTTGTGGGGCTTCTCTAGTTCGT
| | ||| |||| |||||||| | || |||||| |||||||| ||| ||| |||| |||||||||||| || ||||| ||| ||||||||||| ||||||||||||||||| ||||| || ||| |||||||||||||||| || |||||||||||||| | ||||| |||||||| ||||| || |||
gtatacagatgcgtccttcatttcatgaagcca---atattagatgcccttttttgaaaactta--------taagtcaactgaatttatgcccatggattttgatggaagCTTGGCAGAGATTGAGAAAATATATGAAATTGCAATCAATGGTTCAGATGAAGAAAAGATATCTGCTGCTACCATTCTATGTGGGGCATCTCTGGTACGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaaatttacccagtggtaagccaactgaatttaagctcatgggtttgatggaagCTTAGCAGAGATTGAGAAAATCTATGAGATAGCAGTCAATGGTTCAGATGATGAGAAGATATCTGCTGCAGCAATTCTTTGTGGGGCTTCTCTAGTTCGT
gtttgat putative branch site (score: 5)
tgaatttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cacctttttctttcctgaagccaggtagatcagatgctcttttttgtaaatttacccagtggtaagccaactgaatttaagctcatgggtttgatggaagCTTAGCAGAGATTGAGAAAATCTATGAGATAGCAGTCAATGGTTCAGATGATGAGAAGATATCTGCTGCAGCAATTCTTTGTGGGGCTTCTCTAGTTCGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - tctttcc
- - - - - - - - gaagcca
- - - - - - - - - - - - - - - cagatgc
- - - - - - - - - - - - - - - - - - - - - - - - - -ttaccca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcatgg