Sequence
atgc intronic sequence ATGC exonic sequencegtaaaaactattctaatttcaactctctactttgagaattttgttggttttgacataatttcaacattcagATGGATGAATTGGCGTGCTTTGCTCCTGGAATGTTGGCTTTAGGAGCTTCAGGTTATGGCCCTGATGAAGAAAAAAAGTTTCTTTCACTTGCTGGAGAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G51590.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G51590.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GRMZM2G130889_T01 (Zea mays), 3'ss of exon 11
---------------------------------------gtaaaaactattctaatttcaactctctactttg----agaattttgttggttttgacataatttcaacattcagATGGATGAATTGGCGTGCTTTGCTCCTGGAATGTTGGCTTTAGGAGCTTCAGGTTATGGCCCTGATGAAGAAAAAAAGTTTCTTTCACTTGCTGGAGAG
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gtaatgtatcctaattcagttggttgttcattgttcttggcaggctgcttgttgaagctaatccctcattcttctctaaaattctgacaagttctgcctgtgactaaca--cagATGGATGAACTTGCTTGCTTTGCTCCTGGTATGCTGGCCTTAGGAGCCTCTGGTTACGGGCCAGAAAAATCAGAGCAAATTATGAATCTTGCAAAAGAG
upper sequence: AT1G51590.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GRMZM2G128914_T02 (Zea mays), 3'ss of exon 10
---------------------------------------gtaaaaactattctaatttcaactctctactttg----agaattttgttggttttgacataatttcaacattcagATGGATGAATTGGCGTGCTTTGCTCCTGGAATGTTGGCTTTAGGAGCTTCAGGTTATGGCCCTGATGAAGAAAAAAAGTTTCTTTCACTTGCTGGAGAG
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gtaatgtatcctcattcagttgagtgttctttgttgttggcaggctgcttgctgaaacttatcccccattcttctctaaagttctaacaagttctgcctgtgacaaaca--cagATGGATGAACTTGCTTGCTTTGCCCCTGGTATGCTGGCATTAGGAGCCTCTGGTTATGGGCCAGAAAAATCAGAGCAAATTATGAATATGGCAAAAGAG
upper sequence: AT1G51590.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GRMZM2G128914_T03 (Zea mays), 3'ss of exon 10
---------------------------------------gtaaaaactattctaatttcaactctctactttg----agaattttgttggttttgacataatttcaacattcagATGGATGAATTGGCGTGCTTTGCTCCTGGAATGTTGGCTTTAGGAGCTTCAGGTTATGGCCCTGATGAAGAAAAAAAGTTTCTTTCACTTGCTGGAGAG-
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gtaatgtatcctcattcagttgagtgttctttgttgttggcaggctgcttgctgaaacttatcccccattcttctctaaagttctaacaagttctgcctgtgacaaaca--cagATGGATGAACTTGCTTGCTTTGCCCCTGGTATGCTGGCATTAGGAGCCTCTGGTTATGGGCCAGAAAAATCAGAGCAAATTATGAATATGGCAAAAGAGG
upper sequence: AT1G51590.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA17G06600.1 (Glycine max), 3'ss of exon 10
---------gtaaaaactattctaatttcaactc--tctactttgagaattttgttggttttgacataatttcaacattcagATGGATGAATTGGCGTGCTTTGCTCCTGGAATGTTGGCTTTAGGAGCTTCAGGTTATGGCCCTGATGAAGAAAAAAAGTTTCTTTCACTTGCTGGAGAG
|||| | |||| ||| || | | | || | | ||| | | |||| || ||||||||||||| || || |||| |||||||||||||||||| ||| |||| |||||||||| |||| |||| ||||| |||||| | |||
gtgctattttgaaaaggaagtctatttttgccttagccgagtatgtcattaaaagaatcttttatctcgtttccttctt-agATGGATGAATTAGCATGTTTTGTTCCTGGAATGTTGGCTTTGGGATCTTCTAACTATGGCCCTGGAGAAGCTGAAAAATTTCTAGCACTTGGAGAGGAG
upper sequence: AT1G51590.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv11s0052g00140.t01 (Vitis vinifera), 3'ss of exon 10
-------------------gtaaaaactattctaatttcaactc--tctact-ttgagaattttgttggttttgacataatttcaacattcagATGGATGAATTGGCGTGCTTTGCTCCTGGAATGTTGGCTTTAGGAGCTTCAGGTTATGGCCCTGATGAAGAAAAAAAGTTTCTTTCACTTGCTGGAGAG
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gtattgttttgatgatcaaaaggagatttctctagtgctggctgaatatgctgttatggagtcttttaaatgcttctttttcttaatatgcagATGGATGAATTAGCATGCTTTGCTCCAGGGATGTTGGCTTTAGCTTCATATGATTATGGTCCTGGAGAAGCTGAGAAATATCTATCACTTGCGGAAGAGMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|116428419|gb|EG471011.1|EG471011EST: ATTTACGTATATATGTGAGAAGAACGGAAATAATTTGATTGATAAG ATGGATGAATTGGCGTGCTTTGCTCCTGGAATGTTGGCTTTAGGAGCTTCA
genomic: ATTTACGTATATATGTGAGAAGAACGGAAATAATTTGATTGATAAGgtaaaaacta ... caacattcagATGGATGAATTGGCGTGCTTTGCTCCTGGAATGTTGGCTTTAGGAGCTTCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcaactctctactttgagaattttgttggttttgacataatttcaacattcagATGGATGAATTGGCGTGCTTTGCTCCTGGAATGTTGGCTTTAGGAGCTTCAGGTTATGGCCCTGATGAAGAAAAAAAGTTTCTTTCACTTGCTGGAGAG
ttttgac putative branch site (score: 3)
ttttgacataattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaaactattctaatttcaactctctactttgagaattttgttggttttgacataatttcaacattcagATGGATGAATTGGCGTGCTTTGCTCCTGGAATGTTGGCTTTAGGAGCTTCAGGTTATGGCCCTGATGAAGAAAAAAAGTTTCTTTCACTTGCTGGAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA