Sequence
atgc intronic sequence ATGC exonic sequence...tgcattcgtactcaattttcatcttaggtagtagatgctgacagaaaattctattgctattctaggttcctaattctgtttctaattttgtatacaccagAGGGACAAGAGCGAGGAAGCATTACGTTTGGCACAATTATCAGCAGAGAAGCCTCATTTTTCCCATTGTCTGGAGTGGCTTCTTTTTACTGTATTTGATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G052750_T02 (Zea mays), 3'ss of exon 11
-----tgcattcgtactcaattttcatcttaggtagtagatgctgacagaaaattctattgctattctaggttcctaattctgtttctaattttgtatacaccagAGGGACAAGAGCGAGGAAGCATTACGTTTGGCACAATTATCAGCAGAGAAGCCTCATTTTTCCCATTGTCTGGAGTGGCTTCTTTTTACTGTATTTGATG
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tgctctgagatcattctcaaattttgttttgacttattggc-ttgaaaacattttctgacgcc-tctaaatttaattatcctatgttaa---ttgtttaaaccagAGGGACAAGATTGATGAAGCTTTGCGCTTGGCAAATTTGTCAGCAGAAAAACCTCACTTCTCTCACTGTCTAGAGTGGCTTCTGTTTACAGTATTTGATG
upper sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA18G47050.1 (Glycine max), 3'ss of exon 12
--tgcattcgtactcaat--tttcatcttaggtagtagatgctg-acagaaaattctattgctattctaggttcctaattctgtttctaattttgtatacaccagAGGGACAAGAGCGAGGAAGCATTACGTTTGGCACAATTATCAGCAGAGAAGCCTCATTTTTCCCATTGTCTGGAGTGGCTTCTTTTTACTGTATTTGATG
|| | || || |||| || | || || | ||| || | ||| | ||| | | | ||| | || ||| | || |||||||||| | |||||||| ||| | ||||| | ||||||| ||||||||||||||||| |||||||| ||||||||||||||||| |||||||| |
cttgttcttttaacttatcatttctctctaatgaactcttgttgtatagagaaaaaggatatctgtct-gattctt--tcccatttat--ttatgtgtctactagAGGGACAAAATTGAGGAAGCTTTAAGGCTGGCAGAGCTATCAGCTGAGAAGCCTCATTTTTCACATTGTCTAGAGTGGCTTCTTTTTACAGTATTTGAAG
upper sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA09G39270.2 (Glycine max), 3'ss of exon 12
tgcattcgtactcaattttcatcttaggtagtagatgctgacagaaaattctattgctattctaggttcctaattctgtttctaatt--ttgtatacaccagAGGGACAAGAGCGAGGAAGCATTACGTTTGGCACAATTATCAGCAGAGAAGCCTCATTTTTCCCATTGTCTGGAGTGGCTTCTTTTTACTGTATTTGATG
|| | | || || | | | | | ||| |||||| | | | | || | || | || |||| | | |||||||||| | |||||||| ||| | | ||| | ||||||| |||||||| |||||||| |||||||| ||||||||||||||||| |||||||| |
--caaccttgttcttttaacttatcattactctcttaatgaactcttgttctatagagaaaaaggatatctgtctgatttcccgtttatttgtgtctgctagAGGGACAAAATTGAGGAAGCCTTAAGGCTTGCAGAGCTATCAGCTGAGAAGCCCCATTTTTCACATTGTCTAGAGTGGCTTCTTTTTACAGTATTTGAAG
upper sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT3G61480.1 (Arabidopsis thaliana), 3'ss of exon 12
----------------------------tgcattcg--tactcaattttcatcttaggtagtagatgctgacagaaaattctattgctattctaggttcctaattctgtttctaattttgtatacaccagAGGGACAAGAGCGAGGAAGCATTACGTTTGGCACAATTATCAGCAGAGAAGCCTCATTTTTCCCATTGTCTGGAGTGGCTTCTTTTTACTGTATTTGATG
| || | | || || | | || | | || |||| | || | | || || || |||||||| | | || | | ||||| || || | || || || |||| || ||||||||||| |||||||| || || || |||||||||||||||||||||||||||||||| |||||||
gtattgttggtcctggcttctcttttcttaagttagaatgatcccttctttcttcctttattcatttctcctttgcaattttttttttctctcagaatctta-ttctgtttttc-tcttattttggacagAGAGATAAAAATGAAGAGGCGTTACTCTTAGCACAATTATCGGCAGAGAAACCCCACTTCTCCCATTGTCTGGAGTGGCTTCTTTTTACTGTTTTTGATG
upper sequence: Vv15s0046g01890.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT5G28350.1 (Arabidopsis thaliana), 3'ss of exon 12
----------------------------tgcattcg--tactcaattttcatcttaggtagtagatgctg-acagaaaattctattgctattctaggttcctaattctgtttctaattttgtatacaccagAGGGACAAGAGCGAGGAAGCATTACGTTTGGCACAATTATCAGCAGAGAAGCCTCATTTTTCCCATTGTCTGGAGTGGCTTCTTTTTACTGTATTTGATG
| || | | || || | | || | | || | | || || | || | | || || || |||||||| | | | | | ||||| || || | || || || |||| || ||||||||||| |||||||| || || || |||||||||||||||||||||||||||||||| |||||||
gtattgttggtcctggcttctcttttcttaagttagaatgatcccttctttcttcctttattcatttctccattgcaattttttttattctctcagaatctta-ttctgtttttc-tcatattttggacagAGAGATAAAAATGAAGAGGCGTTACTCTTAGCACAATTATCGGCAGAGAAACCCCACTTCTCCCATTGTCTGGAGTGGCTTCTTTTTACTGTTTTTGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaattctattgctattctaggttcctaattctgtttctaattttgtatacaccagAGGGACAAGAGCGAGGAAGCATTACGTTTGGCACAATTATCAGCAGAGAAGCCTCATTTTTCCCATTGTCTGGAGTGGCTTCTTTTTACTGTATTTGATG
ttctaat putative branch site (score: 2)
tttctaattttgtata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcattcgtactcaattttcatcttaggtagtagatgctgacagaaaattctattgctattctaggttcctaattctgtttctaattttgtatacaccagAGGGACAAGAGCGAGGAAGCATTACGTTTGGCACAATTATCAGCAGAGAAGCCTCATTTTTCCCATTGTCTGGAGTGGCTTCTTTTTACTGTATTTGATG
-gcattcg
- - - - - - - - - - - - - - - - -gatgctg
- - - - - - - - - - - - - - - - - - - - - agaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - ctattgc