Sequence
atgc intronic sequence ATGC exonic sequencegtaacataatgctcaagtatgtacaatgatgttcattgcttttaaaaaagaattttactaacatttttatttgattgtagATATGAAAGGGAAGATTAGAGTTTATTGTCGAATAAGACCTCTAAATGAAAAAGAGAGTTCAGAGAGGGAAAAACAAATGCTGACAACTGTGGATGAGTT
Basic information
species | Arabidopsis thaliana |
transcript | AT5G65930.2 |
intron # | 15 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G65930.3 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA01G35950.1 (Glycine max), 3'ss of exon 18
--------------------------gtaacataatg--ctcaagtatgtacaatgatgttcattgcttttaaaaaagaattttacta-acatttttatttgattgtagATATGAAAGGGAAGATTAGAGTTTATTGTCGAATAAGACCTCTAAATGAAAAAGAGAGTTCAGAGAGGGAAAAACAAATGCTGACAACTGTGGATGAGTT
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gtggtggatagaatatatttatacaagaaatattatgtatttgtgaatgtgtagatttacatatataactgacataataactacattggattatggttcttaatttcagATATGAAAGGCAAGATAAGAGTTTATTGTCGGTTAAGACCTCTTAGTGAAAAAGAGATTGCAAGCAAAGAAAGAGATTCTCTTACTACTACTGATGAGTT
upper sequence: AT5G65930.3 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA11G09480.1 (Glycine max), 3'ss of exon 18
--------------------------gtaacataatgctcaagtatgtacaatgatgttcat-tgcttttaaaaaagaattttactaacatttttatt--tgattgtagATATGAAAGGGAAGATTAGAGTTTATTGTCGAATAAGACCTCTAAATGAAAAAGAGAGTTCAGAGAGGGAAAAACAAATGCTGACAACTGTGGATGAGTT
| || || ||| || | ||| | ||| | | | | | | | | ||| | ||| | ||| |||||||||||| ||||| |||||||||||||| |||||||||| | ||||||||||| | || | |||| | | || || ||||| ||||||||
gtggtggacagaatttatttataccagaaatattatgtatctgtgaatttgtagatttacatatataactgacataataactacgttggattatgattctttatttcagATATGAAAGGCAAGATAAGAGTTTATTGTCGGTTAAGACCTCTTAGTGAAAAAGAGATTGCAAGCAAAGAAAGAGATTCTCTTACTACTGTAGATGAGTT
upper sequence: AT5G65930.3 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA16G21340.1 (Glycine max), 3'ss of exon 21
------------------gtaacataatgctcaagtatgtacaatgatgtt--cattgcttttaaaaaagaattttactaacatt-----tttatttgattgtagATATGAAAGGGAAGATTAGAGTTTATTGTCGAATAAGACCTCTAAATGAAAAAGAGAGTTCAGAGAGGGAAAAACAAATGCTGACAACTGTGGATGAGTT
|| | || ||| | | | |||| ||| | ||| | | ||| || || ||| || ||| ||||| || ||||| |||||||| |||||| |||||||||| | ||||||||||| | |||| |||| | || | || || | || ||||| ||
gtggatgatcaaaactctttatttttggaatccagtctatgtgaatgtgttgacatcatatataactggtcacatattcaaccttggaacttgtttttctttcagACATGAAGGGCAAGATCAGAGTTTACTGTCGACTAAGACCTCTTAGTGAAAAAGAGATTGTTGAGAAAGAAAGAGAAGTTCTTACTGCAGTTGATGAATT
upper sequence: AT5G65930.3 (Arabidopsis thaliana), 3'ss of exon 15
lower sequence: GLYMA09G32740.1 (Glycine max), 3'ss of exon 18
------------------------gtaacataatgctcaagtatgtacaatgatgttcat-tgcttttaaaaaagaattttac-taacatttttatttgattgtagATATGAAAGGGAAGATTAGAGTTTATTGTCGAATAAGACCTCTAAATGAAAAAGAGAGTTCAGAGAGGGAAAAACAAATGCTGACAACTGTGGATGAGTT
| || | | | | | | ||| | ||| | | | ||| || | | || ||| || ||| ||||| || ||||| |||||||| |||||| |||||||||| | ||||||||||| | | |||| |||| | || | || || | ||||||||
gtgggtgattgaaactctttaattttggaatcaagtctatgagtatgtgttgacatacatacataactgatcacatattcaaccttggaacttggttttctttcagACATGAAGGGCAAGATCAGAGTTTACTGTCGACTAAGACCTCTTAGTGAAAAAGAGATTGCTGAGAAAGAAAGAGAAGTTCTTACTGCCACTGATGAGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgatgttcattgcttttaaaaaagaattttactaacatttttatttgattgtagATATGAAAGGGAAGATTAGAGTTTATTGTCGAATAAGACCTCTAAATGAAAAAGAGAGTTCAGAGAGGGAAAAACAAATGCTGACAACTGTGGATGAGTT
tttttattt CT-rich tract
ttttaaaaaagaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacataatgctcaagtatgtacaatgatgttcattgcttttaaaaaagaattttactaacatttttatttgattgtagATATGAAAGGGAAGATTAGAGTTTATTGTCGAATAAGACCTCTAAATGAAAAAGAGAGTTCAGAGAGGGAAAAACAAATGCTGACAACTGTGGATGAGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG