Sequence
atgc intronic sequence ATGC exonic sequence...tactgctcttggcttttctacaatggatgatttatgagaaatgtttttgttttctgaacattatattgcctaatcctaacactgtataatcgaaatgaagGACTTTGAATTCAAAGAGCTGGAGGATGTCTTACAATACTACCCTCAAGGATACCATGGAGTTGATAAGGAAGGAAGGCCAGTTTACATTGAGAGACTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0015g01160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G014994_T03 (Zea mays), 3'ss of exon 3
----------------------------------------tactgctcttggcttttctac-aatggatgatttatgagaaatgtttttgt-tttctg-aacattatattgcctaatcctaacactgtataat----cgaaatgaagGACTTTGAATTCAAAGAGCTGGAGGATGTCTTACAATACTACCCTCAAGGATACCATGGAGTTGATAAGGAAGGAAGGCCAGTTTACATTGAGAGACTTG
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gtaggatgttgtctattctaaaaagttgatctcaaaatcttatgaaactctgctgatatattgacgtatacgataagattattcatcatatgcttctgcaaaactatgtcatgca-tactaacagtagctaacttcactcattgaagGATTTTGAATTTCATGAGCTAGAGGAGGTCCTGCAGTATTACCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTGTACATTGAGTTGCTTG
upper sequence: Vv19s0015g01160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G459982_T01 (Zea mays), 3'ss of exon 2
--------------------------------------------------tactgctct-----tggcttttc-tacaatggatgatttatgagaaatgtt-----tttgttttctgaacattatat--tgcctaatcctaacactgtataat-cgaaatgaagGACTTTGAATTCAAAGAGCTGGAGGATGTCTTACAATACTACCCTCAAGGATACCATGGAGTTGATAAGGAAGGAAGGCCAGTTTACATTGAGAGACTTG
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gtaggatgttgtctactctagaaagttgatctcaaagttatatgaaactctgctgatatatagatgtatttacatgcactctatggcttctaagat-tgttcatcatatgattttgcaaaactatgccatgccttttaacagtagcttactgtactcgttgaagGATTTTGAATTTCATGAACTAGAGGAGGTCCTGCAATATTATCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTCTACATTGAGTTGCTTG
upper sequence: Vv19s0015g01160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G452580_T03 (Zea mays), 3'ss of exon 4
--------------------------------------------------tactgctct-----tggcttttc-tacaatggatgatttatgagaaatgtttttgtt---ttctg-aacattatat--tgcctaatcctaacactgtataat-cgaaatgaagGACTTTGAATTCAAAGAGCTGGAGGATGTCTTACAATACTACCCTCAAGGATACCATGGAGTTGATAAGGAAGGAAGGCCAGTTTACATTGAGAGACTTG
| ||| | | || ||| | | || | ||| || | ||| | | | ||||| || | ||| | ||| || | | | || | | ||||||| |||||||| | || || ||||| ||| | ||||| || ||||| || |||||||| ||||| |||||||||||||| || ||||||||| ||||
gtaggatgttgtctactctaaaaagttgatctcaaagttatatgaaactctgctgatatatagatgtatttacatgcactctatggcttctaagattgttcatcatatgattctgcaaaactatgtcatgcatattaacagtagcttactgtactcgttgaagGATTTTGAATTTCATGAACTAGAGGAGGTCCTGCAATATTATCCTCATGGTTACCATGGGGTTGACAAGGAAGGAAGGCCTGTCTACATTGAGTTGCTTG
upper sequence: Vv19s0015g01160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G12450.1 (Glycine max), 3'ss of exon 4
tactgctcttggcttttcta--caatggatgatttatga--gaaatgtttttgttttctgaacattatattgcctaatcctaacactgtataatcgaaatgaagGACTTTGAATTCAAAGAGCTGGAGGATGTCTTACAATACTACCCTCAAGGATACCATGGAGTTGATAAGGAAGGAAGGCCAGTTTACATTGAGAGACTTG
| || |||||| || | || || || | | || |||| | ||| | | | || || | ||||||| |||||||| ||||||||| || || || || || || |||||||| ||||||||||||||||||||||| |||||||||||||||||||||||||
----attatttgcttttttaatctttgaatatttcagcatcagcatattttcaatgctagaagacaccggatacatgttttattttggttgggtgtttttgaagGATTTTGAATTTGGAGAGCTGGAAGAAGTATTGCAGTATTATCCTCAAGGGTACCATGGAGTTGATAAGGAAGGTAGGCCAGTTTACATTGAGAGACTTG
upper sequence: Vv19s0015g01160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G48060.1 (Glycine max), 3'ss of exon 4
tactgctcttggcttttcta----caatggatgatttatgagaaatgtttttgttttctgaacattatattgcctaatcctaacactgtataatcgaaatgaagGACTTTGAATTCAAAGAGCTGGAGGATGTCTTACAATACTACCCTCAAGGATACCATGGAGTTGATAAGGAAGGAAGGCCAGTTTACATTGAGAGACTTG
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---aatctttgaatatttcagcatcagcatattttctatgctagaagacacc-ttatgtatgttttattttgctttggtgtgattgtggtgataatgtttgaagGATTTTGAATTTGGAGAGCTGGAAGAAGTATTGCAGTATTATCCTCAAGGGTACCATGGAGTTGATAAGGAAGGTAGGCCAGTCTACATTGAGAGACTTG
upper sequence: Vv19s0015g01160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G17830.1 (Glycine max), 3'ss of exon 3
tactgctcttggcttt-----tctacaatggatgatttatga-gaaatgtttttgttttctgaacattatattgcctaatcctaaca-ctgtataatcgaaatgaagGACTTTGAATTCAAAGAGCTGGAGGATGTCTTACAATACTACCCTCAAGGATACCATGGAGTTGATAAGGAAGGAAGGCCAGTTTACATTGAGAGACTTG
|| | | ||| | || || || | |||| ||| ||| | ||| || ||| ||| |||| |||| | | ||||||| |||||||| |||||||||| || || || || | ||||||||||| || ||||||||||| |||||||| ||||||||||||||||| || ||||
---tgtttgtacgtttcaaaatttagaacatgtgttctatgctaggatgcacttgatacatga---tttggttggttaagtctaatgtctgttctgac-atttgaagGATTTTGAATTTGAAGAGCTGGAAGAAGTGTTGCAGCATTACCCTCAAGGGTATCATGGAGTTGACAAGGAAGGTAGGCCAGTTTACATTGAAAGGCTTG
upper sequence: Vv19s0015g01160.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G55690.3 (Arabidopsis thaliana), 3'ss of exon 5
---------------------------------------------------------tactgctcttggcttttctacaatggatgatttatgagaaatgttt--ttgttttctgaac--atta-------tattgcctaatcctaac------actgtataatcgaaatgaagGACTTTGAATTCAAAGAGCTGGAGGATGTCTTACAATACTACCCTCAAGGATACCATGGAGTTGATAAGGAAGGAAGGCCAGTTTACATTGAGAGACTTG
|| | ||||| | | | | | | || || | | | || |||| | || | | |||| || | ||| | || ||| | |||| ||||| ||| ||||||| || || || || |||||||| |||||||| || ||||||||||||||||||||||| || || |||||||| |||||||
gttaggagtcatttatttaagtttgaaacctgcttgtttccatatgaaaaaaagaagtaat-ttcttgtgtacaacatacttggtatttggatgcaagcatctaatcattctctggattagttgatggaatcaatatctaactcttataattttactatgtatgtgaatggtagGATTTTGATTTCGAAGAGCTTGAAGAAGTTTTGCAATACTATCCTCAAGGCTATCATGGAGTTGATAAGGAAGGAAGACCTGTCTACATTGAAAGACTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttgttttctgaacattatattgcctaatcctaacactgtataatcgaaatgaagGACTTTGAATTCAAAGAGCTGGAGGATGTCTTACAATACTACCCTCAAGGATACCATGGAGTTGATAAGGAAGGAAGGCCAGTTTACATTGAGAGACTTG
tcctaac putative branch site (score: 1)
aacattatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tactgctcttggcttttctacaatggatgatttatgagaaatgtttttgttttctgaacattatattgcctaatcctaacactgtataatcgaaatgaagGACTTTGAATTCAAAGAGCTGGAGGATGTCTTACAATACTACCCTCAAGGATACCATGGAGTTGATAAGGAAGGAAGGCCAGTTTACATTGAGAGACTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - gctcttg
- - - - - - - - - - caatgga
- - - - - - - - - - - - - - - - -atgagaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcctaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctaacac