Sequence
atgc intronic sequence ATGC exonic sequence...ctcatctcattataaaaacttctagctattgctatggatttttcaaaaactttgttttctataaaaaattattctgggactaagtagttgatggttgcagGACTGGGCAGATTTATGGCGACCTGAACTTGCAGGGAGGATTTCAATGATTGATTCTCCACGAGAGGTTGTTGGTGCTGTTTTAAAGTACATGGGAGCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0087g00180.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G129071_T01 (Zea mays), 3'ss of exon 3
-------------------------------------------------------------------------------------ctcatctcattataaaaacttctagctattgctatggatttttcaaaaactttgttttctataaaaaattattct--gggactaagta-gttgatggtt-----gcagGACTGGGCAGATTTATGGCGACCTGAACTTGCAGGGAGGATTTCAATGATTGATTCTCCACGAGAGGTTGTTGGTGCTGTTTTAAAGTACATGGGAGCAT
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gtgaacatttttctttgagaaaagtatgcaatattagcctaaacctacaaagggcatgtttgtaggcttccctttttctatggaaatggaaatgtgaaggatagtactaactaccgagacatacttttttgc--tcgtgcttattgatgctgactatctttaggtgttaagcatattgatcttttatctgtagGATTGGGAGGATTTGTGGAGGCCCGAGCTTGCCGGGAGGATTTCAATGGTCGATTCTCCTAGAGAGGTGATTGGTGCTGTTCTGAAGCATCTGGGCTCAT
upper sequence: Vv02s0087g00180.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G455978_T02 (Zea mays), 3'ss of exon 2
ctcatctcattataaaaacttctagctattgctatggatttttcaaaaactttgttttctataaaaaattattctgggactaagtagttga------tggttgcagGACTGGGCAGATTTATGGCGACCTGAACTTGCAGGGAGGATTTCAATGATTGATTCTCCACGAGAGGTTGTTGGTGCTGTTTTAAAGTACATGGGAGCAT-----
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------tgccgagacatactttttgctcgtactttttgattaatgttgactatctttgctgtgataaacctgataggtgttgaacattttgcttttttgtctgtagGACTGGGAGGATTTATGGAGGCCCGAACTTGCTGGGAGGATTTCAATGGTCTACTA-----GAGAGGTGATTGGTGCAGTTCTGAAGCATCTGGGGTCATCATAT
upper sequence: Vv02s0087g00180.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G455978_T01 (Zea mays), 3'ss of exon 5
----------ctcatctcattataaaaacttctagctattgctatggatttttcaaaaactttgttttctataaaaaattattctgggactaagtagttga------tggttgcagGACTGGGCAGATTTATGGCGACCTGAACTTGCAGGGAGGATTTCAATGATTGATTCTCCACGAGAGGTTGTTGGTGCTGTTTTAAAGTACATGGGAGCAT-----
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gtaaaaaaatattgactgccgagacatactttttgctcgtactttttgattaatgttgactatctttgctgtgataaacctgataggtgttgaacattttgcttttttgtctgtagGACTGGGAGGATTTATGGAGGCCCGAACTTGCTGGGAGGATTTCAATGGTCTACTA-----GAGAGGTGATTGGTGCAGTTCTGAAGCATCTGGGGTCATCATAT
upper sequence: Vv02s0087g00180.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G17320.1 (Glycine max), 3'ss of exon 1
ctcatctcattataaaaacttctagctattgctatggatttttcaaaaactttgttttctataaaaaattattctgggactaagtagttgatggttgcagGACTGGGCAGATTTATGGCGACCTGAACTTGCAGGGAGGATTTCAATGATTGATTCTCCACGAGAGGTTGTTGGTGCTGTTTTAAAGTACATGGGAGCAT
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----------------------------gtaagttgctttcaataaacactgtaaaactcttgtagtgtgtttatgagagtatgtcaactgaaattgcagGACTGGGCAGATCTGTGGCGGCCCGATCTTGCAGGGAGGATTTCAATGGTTGATTCTCCCCGAGAAGTTATTGGAGCAGTTTTGAAGTATATGGGGGCTT
upper sequence: Vv02s0087g00180.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA16G08170.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------------------------------------------------ctcatctcattataaaaacttctagctattgctatggatttttcaaaaactttgttttctataaaa----aattattctgggactaagtagttgatggttgcagGACTGGGCAGATTTATGGCGACCTGAACTTGCAGGGAGGATTTCAATGATTGATTCTCCACGAGAGGTTGTTGGTGCTGTTTTAAAGTACATGGGAGCAT
| || |||| | | |||| | | |||||| || | || | | | || || || | || |||||||||||||||||| | ||||| ||||| |||||||||||||| | ||| ||||||||||| |||| ||||||||||| ||||| || || |||||||| |
gtaggttgtttttagtagacactgtaaaacccttatgctgtgtttgtttgagggagggggagagtaataatgttggttttatgtggatgccttgtacactatactttaattcaaatatttttcttctattttcatcctctaaaccaaacacaacattatagtgtttatgagagcatgtgaactgaaattgcagGACTGGGCAGATCTGTGGCGTCCTGATCTTGCAGGGAGGATCTTGATGGTTGATTCTCCAAGAGAAGTTGTTGGTGCAGTTTTGAAATATATGGGAGCTT
upper sequence: Vv02s0087g00180.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G31410.1 (Arabidopsis thaliana), 3'ss of exon 4
ctcatctcattataaaaacttctagctattgctatggatttttcaaaaactttgttttctataaaaaattattctgggactaagtagtt-gatggttgcagGACTGGGCAGATTTATGGCGACCTGAACTTGCAGGGAGGATTTCAATGATTGATTCTCCACGAGAGGTTGTTGGTGCTGTTTTAAAGTACATGGGAGCAT
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-----------gttggtatactttgttgttgctaaatgctgtcttagtgttttcctatttaaaagaagtgaatatc--actgaacattttgctgaatttagGACTGGGCTGATCTGTGGCGACCCGAGCTTGCAGGAAGGATCGCAATGGTGAATTCTCCTAGAGAGGTTGTTGGTGCTGTTCTCAAATACATGAGAGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaactttgttttctataaaaaattattctgggactaagtagttgatggttgcagGACTGGGCAGATTTATGGCGACCTGAACTTGCAGGGAGGATTTCAATGATTGATTCTCCACGAGAGGTTGTTGGTGCTGTTTTAAAGTACATGGGAGCAT
agttgat putative branch site (score: 5)
tttgttttctataaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcatctcattataaaaacttctagctattgctatggatttttcaaaaactttgttttctataaaaaattattctgggactaagtagttgatggttgcagGACTGGGCAGATTTATGGCGACCTGAACTTGCAGGGAGGATTTCAATGATTGATTCTCCACGAGAGGTTGTTGGTGCTGTTTTAAAGTACATGGGAGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCA
-tcatctc
- - - - - -ataaaaa
- - - - - - - - - cttctag
- - - - - - - - - - - - - - - -ctatgga
- - - - - - - - - - - - - - - - - - - - - tcaaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - attctgg