Sequence
atgc intronic sequence ATGC exonic sequencegttatatggtttccttattttttttaattttaaatttttattattttttgaaatttgaaatttccttttttaatggaagtttcttttgagatttcttaagagatggttcctttctaattcttaaccatctttctgaatatttaacagCAAAGATTTAGTGAGAATGTGGGCCAGCTTTTGGATCCAAATCATGCCACAATATTGAAGTCTGCTGCAGCAGCTGGCCAGCCTTCAGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA06G07580.1 (Glycine max), 3'ss of exon 4
gttatatggtttccttattttttttaattttaaatttttattattttttgaaatttgaaatttccttttttaatggaagtttcttttgagatttcttaagagatggttcctttctaattcttaaccatctttctgaatatttaacagCAAAGATTTAGTGAGAATGTGGGCCAGCTTTTGGATCCAAATCATGCCACAATATTGAAGTCTGCTGCAGCAGCTGGCCAGCCTTCAGG
||| || | | || | |||| || | | | | | ||| ||| | | | | ||| | | ||||| | ||||| ||||||||||||| ||||||| |||||||||| ||||| ||||||||||| | ||||| ||||| |||||||| ||||||||||||||||
----------------------------------------------gttgggggatgt--tctggttatctaatctaattataagataaaaaatctgtttctatgatgcatat---gttcattgctttcttttggtatattatacagCAAAGATTTGGTGAGAACATGGGCCAGCTCTTGGACCCAAATCATGCACCGATATTAAAGTCAGCTGCAGCTCCTGGCCAGCCTTCAGG
upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA04G07460.1 (Glycine max), 3'ss of exon 4
gttatatggtttccttattttttttaattttaaatttttattattttttgaaatttgaaatttccttttttaatggaagtttcttttgagatttcttaagagatggttcctttcta-----attcttaaccatctttctgaatatttaacagCAAAGATTTAGTGAGAATGTGGGCCAGCTTTTGGATCCAAATCATGCCACAATATTGAAGTCTGCTGCAGCAGCTGGCCAGCCTTCAGG
||| || | | || | |||| || | || | |||| || | || ||| | | ||| | | ||||| | ||| | ||||||||||||| |||| || ||||||| || ||||| ||||||||||| | ||||| ||||| |||||||| ||||||||||||||||
----------------------------------------------gttgggggatgt--tctggttatctaat--aaactaattataagataa---aaaatctgtttctatgatgcatatgttcattgctttcttttggtatactatacagCAAAGATTTGGTGAAAACATGGGCCAACTCTTGGACCCAAATCATGCATCGATATTAAAGTCAGCTGCAGCTCCTGGCCAGCCTTCAGG
upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA14G16040.1 (Glycine max), 3'ss of exon 4
gttatatggtttccttattttttttaattttaaatttttattattttttgaaatttgaaatttccttttttaatggaagtttcttttgagatttcttaagagatggttcctttctaattcttaaccatctttctgaatatttaacagCAAAGATTTAGTGAGAATGTGGGCCAGCTTTTGGATCCAAATCATGCCACAATATTGAAGTCTGCTGCAGCAGCTGGCCAGCCTTCAGG
|| || ||| | | || ||| | | ||| ||| || | ||| |||| |||| ||||| | || || ||||||||||| ||| | ||| || || || |||||||||||| ||||||||||||| ||||||| ||||||||||||||||
------------------------------------------gttgggagatattctggttgcctaattataaagatgaactacttt----ttttttgttatatgt----------attcataactatcttatggtattttgtacagCAAAGAT---------ATGGAGACCAACTCTTAGACCCAAATCATGCCTCAATATTGAAGTCATCTGCAGCTACTGGCCAGCCTTCAGG
upper sequence: Vv04s0008g04890.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G30910.1 (Glycine max), 3'ss of exon 4
gttatatggtttccttattttttttaattttaaatttttattattttttgaaatttgaaatttccttttttaatgg-aagtttcttttgagatttcttaagagatggttcctttctaattcttaaccatctttctgaatatttaacagCAAAGATTTAGTGAGAATGTGGGCCAGCTTTTGGATCCAAATCATGCCACAATATTGAAGTCTGCTGCAGCAGCTGGCCAGCCTTCAGG
|| || ||| | | || ||| | | | | ||| ||| ||| | || | |||| |||| ||||| | || || ||||||||||||| | || ||| | || || |||||||||||| ||||||||||||| ||||||| | ||||||||||||||
------------------------------------------gttgggagatattctggttgcctaattataaagatgaactgcatttt---tttgttatgttatatat--------attcataactatcttatggtattttgtacagCAAAGATTTGGAGA---------CCAAATCTTAGACCCAAATCATGCCTCAATATTGAAGTCATCTGCAGCTACCGGCCAGCCTTCAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcttaagagatggttcctttctaattcttaaccatctttctgaatatttaacagCAAAGATTTAGTGAGAATGTGGGCCAGCTTTTGGATCCAAATCATGCCACAATATTGAAGTCTGCTGCAGCAGCTGGCCAGCCTTCAGG
tcttaac putative branch site (score: 2)
tttctgaatatttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttatatggtttccttattttttttaattttaaatttttattattttttgaaatttgaaatttccttttttaatggaagtttcttttgagatttcttaagagatggttcctttctaattcttaaccatctttctgaatatttaacagCAAAGATTTAGTGAGAATGTGGGCCAGCTTTTGGATCCAAATCATGCCACAATATTGAAGTCTGCTGCAGCAGCTGGCCAGCCTTCAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG