Sequence
atgc intronic sequence ATGC exonic sequencegtaagtatctcctaatcttacttctcctttacgtttatccaagcagcgtgtttgattgttttgtgaaatcagGATGAGAGAGAGATTAAGCGACAGAGACGGAAGCAATCCAATAGGGAATCTGCTCGTAGATCCAGGTTGCGTAAACAG
Basic information
species | Arabidopsis thaliana |
transcript | AT1G32150.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G32150.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: LOC_Os12g13170.1 (Oryza sativa), 3'ss of exon 10
-----------------------------gtaagtatctcctaatcttacttctcctttacgtttatccaagcagcgtgtttgattgttttgtgaaatcagGATGAGAGAGAGATTAAGCGACAGAGACGGAAGCAATCCAATAGGGAATCTGCTCGTAGATCCAGGTTGCGTAAACAG
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atggcacttaatcatcaacaatcctatggatacaaacatgaagttttcagtttttctggcaaatggagaaattagtcgtgttgactctcccatgat-tcagGATGAACGGGAACTCAAAAGGCAGAGAAGAAAACAATCCAACAGGGAGTCTGCTCGCAGATCTAGGTTGCGTAAGCAG
upper sequence: AT1G32150.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GRMZM2G088140_T01 (Zea mays), 3'ss of exon 9
-----------------gtaagtatctcctaatcttacttctcctttacgtttatccaagcagcgtgt-ttgattgttttgtgaaat----------cagGATGAGAGAGAGATTAAGCGACAGAGACGGAAGCAATCCAATAGGGAATCTGCTCGTAGATCCAGGTTGCGTAAACAG
|| || | | | || || | | || |||| | |||| ||| || | | | |||||||| || | || || ||| | ||||| ||||||||||| ||||| |||||||| ||||| |||||||||
ttgacactagagaaattgtgtatacaaattcaacatatatcaatatggcaattggagaagctattcatgttgactgtagtgggtactacttgtggttcagGATGAACATGAACTCAAAAAGCAAAGAAGAAAGCAGTCCAATAGGGAGTCTGCACGTAGATCTAGGTTACGTAAACAG
upper sequence: AT1G32150.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA01G01740.1 (Glycine max), 3'ss of exon 9
------------------gtaagtatctcctaatcttacttctcctttacgtttatccaagcagcgtgtttgattgtttt--------gtgaaat--cagGATGAGAGAGAGATTAAGCGACAGAGACGGAAGCAATCCAATAGGGAATCTGCTCGTAGATCCAGGTTGCGTAAACAG
| || | | | ||| | | ||||| | || || | ||| || |||| || || | |||||||| |||||| |||| | || || |||||||| || || ||||||||||||||||| ||||||||||| || |||
ctcttaatgttggtctcagacctgattttaaagttttattgttgctttattactgtctttacatgttattttatatttttcttttctggttaactttcagGATGAAAGAGAGCTTAAAAGGCAAAGGCGGAAGCAGTCTAACAGGGAATCTGCTCGTAGGTCCAGGTTGCGAAAGCAG
upper sequence: AT1G32150.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA01G01740.2 (Glycine max), 3'ss of exon 9
------------------gtaagtatctcctaatcttacttctcctttacgtttatccaagcagcgtgtttgattgtttt--------gtgaaat--cagGATGAGAGAGAGATTAAGCGACAGAGACGGAAGCAATCCAATAGGGAATCTGCTCGTAGATCCAGGTTGCGTAAACAG----------------------
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ctcttaatgttggtctcagacctgattttaaagttttattgttgctttattactgtctttacatgttattttatatttttcttttctggttaactttcagGATGAAAGAGAGCTTAAAAGGCAAAGGCGGAAGCAGTCTAACAGGGAATCTGCTCGTAGGTCCAGGTTGCGAAAGCAGGTAATGGAGAGTACCCTATGGT
upper sequence: AT1G32150.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: GLYMA09G34170.1 (Glycine max), 3'ss of exon 11
------------------gtaagtatctcctaatcttacttctcctttacgtttatccaagcagcgtgtttgattgtttt--------gtgaaat--cagGATGAGAGAGAGATTAAGCGACAGAGACGGAAGCAATCCAATAGGGAATCTGCTCGTAGATCCAGGTTGCGTAAACAG
| || | | | ||| | | |||| | || | | ||| || |||| || || | |||||||| |||||| |||| | || || |||||||| || || |||||||||||||| || ||||||||||| || |||
ttttaatgtttggtctgagacctgattttaaagttttattgttgttttattactttctttatacgttattttatctttttcttttctggttaactttcagGATGAAAGAGAGCTTAAAAGGCAAAGGCGGAAGCAGTCTAACAGGGAATCTGCTCGCAGGTCCAGGTTGCGCAAGCAG
upper sequence: AT1G32150.1 (Arabidopsis thaliana), 3'ss of exon 10
lower sequence: Vv02s0012g02250.t01 (Vitis vinifera), 3'ss of exon 10
----------------gtaagtatctcctaatctt---actt-ctcctttacgtttatccaagc-agcgtgtttgattgttttg-------tgaaatcagGATGAGAGAGAGATTAAGCGACAGAGACGGAAGCAATCCAATAGGGAATCTGCTCGTAGATCCAGGTTGCGTAAACAG
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tgacaccttcgggcctttttttttcttttaatgttcatgcttattcccttattattattgttgctattttatttgacactttgaacttactttgattcagGATGAAAGAGAGCTTAAAAGACAGAGAAGAAAGCAGTCGAACCGGGAGTCTGCTCGCCGATCCAGGTTGCGTAAGCAGMapped 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|164166100|gb|ES062441.1|ES062441EST: GATGGTTCCCAATCACAGCCATGGTTACAGGTTTCT GATGAGAGAGAGATTAAGCGACAGAGACGGAAGCAATCCAATAGGGAATCT
genomic: GATGGTTCCCAATCACAGCCATGGTTACAGGTTTCTgtaagtatct ... gtgaaatcagGATGAGAGAGAGATTAAGCGACAGAGACGGAAGCAATCCAATAGGGAATCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacttctcctttacgtttatccaagcagcgtgtttgattgttttgtgaaatcagGATGAGAGAGAGATTAAGCGACAGAGACGGAAGCAATCCAATAGGGAATCTGCTCGTAGATCCAGGTTGCGTAAACAG
attgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtatctcctaatcttacttctcctttacgtttatccaagcagcgtgtttgattgttttgtgaaatcagGATGAGAGAGAGATTAAGCGACAGAGACGGAAGCAATCCAATAGGGAATCTGCTCGTAGATCCAGGTTGCGTAAACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA