Sequence
atgc intronic sequence ATGC exonic sequence...caaggtagctctgcctttttcttatataccattttttaagtactttctcctagctactaccctttctgaacttctatgttgtctttgcctgttcctgcagATTTTGAAGATCAATCCACAGAAGAAGGATATTGAATCATTTGTGGCAGCTGATTTTGAGCTTATAGGTTATAATCCTCACCAGAAGATTGAAATGAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g12940.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os11g29390.1 (Oryza sativa), 3'ss of exon 10
---------------------------------------caaggta-gctctgcctttttcttatatacc--attttttaagtactttctcctagctactaccc----tttctgaacttctatgttgtctt-tgcctgtt-cctgcagATTTTGAAGATCAATCCACAGAAGAAGGATATTGAATCATTTGTGGCAGCTGATTTTGAGCTTATAGGTTATAATCCTCACCAGAAGATTGAAATGAAAA
|| || | || | | | || | |||| | || | || || | | ||| | || | | | | || | | ||||| |||||||||| || || |||||||||||| || || || |||||| | || || |||| | |||||| |||||||||||||||||||||||||||
gtaagcaactcaataatttaaatttatttcattcaaaagcatggaacattcagatatgaaacagcactcctgagttttgtgatgattcaccttacttatcaatggtgatgtctataaatccgtttaattatatgaatactatgtgcagGTTTTGAAGATTAACCCTTTGAAGAAGGATATAGATTCTTTCGTGGCATCAGACTTCAAGCTGGTCGGTTATGATCCTCACCAGAAGATTGAAATGAAAA
upper sequence: Vv18s0001g12940.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA12G04480.1 (Glycine max), 3'ss of exon 10
--------caaggt----agctctgcctttttcttatataccattttttaagtactttctcctagctactaccctttctgaacttctatgttgtctttgcctg----ttcctgcagATTTTGAAGATCAATCCACAGAAGAAGGATATTGAATCATTTGTGGCAGCTGATTTTGAGCTTATAGGTTATAATCCTCACCAGAAGATTGAAATGAAAA
|| || | | | || | | || || | || || || | || | | | | ||| | | | || ||| | | |||||||||||||| || ||| ||||||| ||||| || || ||||||||||||||||| |||| ||||| ||| |||||||||||||||| |||||||| |
gtatgtgtaaatgtttaaggatttcgtttgctttaatgtagatgctcacaaatatttaccattatgcattcgtataaattgccttttccttgttgattacctaaacttctattcagATTTTGAAGATAAACCCAAAGAAGAAAGATATAGATTCTTTTGTGGCAGCTGATTTCAAGCTCATAGGATATGATCCTCACCAGAAGATAGAAATGAAGA
upper sequence: Vv18s0001g12940.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA06G01280.3 (Glycine max), 3'ss of exon 10
caaggtagctctgcctttttcttatataccattttttaagtactttctcctagctactaccctttctgaacttctatgttgtctttgcctgttcctgcagATTTTGAAGATCAATCCACAGAAGAAGGATATTGAATCATTTGTGGCAGCTGATTTTGAGCTTATAGGTTATAATCCTCACCAGAAGATTGAAATGAAAA
| | | | | | || || || || | | ||| | || | ||| | | | ||| || | |||||| ||||||||| |||||| ||||||| ||||| || || |||||||| |||||||| |||| ||||| ||| ||||||||||||||||||| |||||
------------gtatgtgtaatgtttagcacttctttaagtttatcttttgactcttttacttgtttaccccctaa--------tgtacttcattgcagACTTTGAAGATAAATCCAAAGAAGAAAGATATAGATTCTTTTGTGGCTGCTGATTTCAAGCTCATAGGCTATGATCCTCACCAGAAGATTGATATGAAGC
upper sequence: Vv18s0001g12940.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA04G01240.1 (Glycine max), 3'ss of exon 10
caaggtagctctgcctttttcttatataccattttttaagtactttctcctagctactaccctttctgaacttctatgttgtctttgcctgttcctgcagATTTTGAAGATCAATCCACAGAAGAAGGATATTGAATCATTTGTGGCAGCTGATTTTGAGCTTATAGGTTATAATCCTCACCAGAAGATTGAAATGAAAA
| | | | | | || || || || | ||| | ||| | ||| ||| | ||| | ||| |||||| |||| |||| |||||| | ||||| ||||| || || |||||||| |||||||| |||| ||||| ||| ||||||||||||||||||| |||||
------------gtatgtgtaatgtttaacacttcttttactttatcttttggctcttttacttgttgaccccctaatctac---------ttcttgcagACTTTGGAGATAAATCCAAAAAAGAAAGATATAGATTCTTTTGTGGCTGCTGATTTCAAGCTCATAGGCTATGATCCTCACCAGAAGATTGATATGAAGC
upper sequence: Vv18s0001g12940.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA11G12280.1 (Glycine max), 3'ss of exon 9
caaggtagctctgcctttttcttatataccattt--tttaa-gtactttctcctagctactaccctttctgaacttctatgttgtctttgcctgttcctgcagATTTTGAAGATCAATCCACAGAAGAAGGATATTGAATCATTTGTGGCAGCTGATTTTGAGCTTATAGGTTATAATCCTCACCAGAAGATTGAAATGAAAA
||| | | | ||| || |||| ||||| ||| | | | || || || || || | ||| | | | | | ||||||||||||| || ||| ||||||| ||||| || || |||||||| ||||||| |||| ||||| ||| ||||||||||||||| |||||||| |
----gtatgtgtaaatgttttaaggattttatttgctttaacgtagatgcccacagatatataccattatgcgttcgtataaattgcctaaatttctatttagATTTTGAAGATAAACCCAAAGAAGAAAGATATAGATTCTTTTGTGGCTTCTGATTTCAAGCTCATAGGATATGTTCCTCACCAGAAGATAGAAATGAAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcctagctactaccctttctgaacttctatgttgtctttgcctgttcctgcagATTTTGAAGATCAATCCACAGAAGAAGGATATTGAATCATTTGTGGCAGCTGATTTTGAGCTTATAGGTTATAATCCTCACCAGAAGATTGAAATGAAAA
tctttgcctgttcct CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caaggtagctctgcctttttcttatataccattttttaagtactttctcctagctactaccctttctgaacttctatgttgtctttgcctgttcctgcagATTTTGAAGATCAATCCACAGAAGAAGGATATTGAATCATTTGTGGCAGCTGATTTTGAGCTTATAGGTTATAATCCTCACCAGAAGATTGAAATGAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - ctctgcc
- - - - - - - - - - - - - - ccatttt
- - - - - - - - - - - - - - - - - - - - - -tttctcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgtc