Sequence
atgc intronic sequence ATGC exonic sequenceTGCTGTATCACTTTTCATGGAGTTGCTGGGTTTCTCTACACAAAAATGGCTCACTGCTGGAGGTCTTGGGACAGTTTTGATTACTCTTGCTGGCCGAGAGgtgaaacctaattctcattttaattactggtttcttcggaatatccactgttagctttagacgttccttttcctgttttatgctaaagatatttcataaaaactgagtttttttttgttttttggttccag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G10490.2 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G10490.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G028914_T02 (Zea mays), 5'ss of exon 9
TGCTGTATCACTTTTCATGGAGTTGCTGGGTTTCTCTACACAAAAATGGCTCACTGCTGGAGGTCTTGGGACAGTTTTGATTACTCTTGCTGGCCGAGAGgtgaaacctaattctcattttaattactggtttcttcggaatatccactgttagctttagacgttccttttcctgttttatgctaaagatatttcataaaaactgagtttttttttgttttttggttccag
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TTCTGTTTCTCTCTTTATGGAGTTGCTGGGTTTCAATACCCAGAAGTGGATAACTGCTGGAGGGTTTGGGACAGTGTTGCTTACACTTGCTGGTCGAGAGgtactac--aaagcatgttgctgata-tgattcatttgtgctgt--ggtgctaatatctatcataatttgttgcag-------------------------------------------------------
upper sequence: AT5G10490.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA09G33170.1 (Glycine max), 5'ss of exon 9
TGCTGTATCACTTTTCATGGAGTTGCTGGGTTTCTCTACACAAAAATGGCTCACTGCTGGAGGTCTTGGGACAGTTTTGATTACTCTTGCTGGCCGAGAGgtg--aaacctaattctcattttaattactg-gtttcttcggaatatccactgttagctttagacgttccttttcctgttttatgctaaa-gatatttcataaaaactgagtttttttttgttttttggttccag
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TGCCTTTTCACTGTTCATGGAATTGCTGGGCTTCTCTACCCAGAAATGGGTTACTGCAGGAGGTCTTGGGACAGTTTTGTTGACCCTTGCTGGTCGTGAGgtgtgggatttatcattgcttctaaacatcacagttcacttgtattttagtggccaaaat--gttattgtggcacctgttg-atgttaaatgatatttgtttag-------------------------------
upper sequence: AT5G10490.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA01G02840.1 (Glycine max), 5'ss of exon 9
TGCTGTATCACTTTTCATGGAGTTGCTGGGTTTCTCTACACAAAAATGGCTCACTGCTGGAGGTCTTGGGACAGTTTTGATTACTCTTGCTGGCCGAGAGgtg--aaacctaattctcattttaattactg-gtttcttcggaatatccactgttagctttagacgttccttttcctgttttatgctaaagatatttcataaaaactgagtttttttttgttttttggttccag
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TGCCTTTTCACTGTTTATGGAATTGCTGGGCTTCTCTACCCAGAAATGGGTTACTGCAGGAGGTCTTGGGACAGTTTTGTTGACCCTTGCTGGTCGTGAGgtgtgggatttatcattgcttctaaacataacaattccttgtagt-ttagtggccaaaat--gttattgtggcacctgttgacattcaatgatattttttcag-------------------------------
upper sequence: AT5G10490.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv00s0313g00020.t01 (Vitis vinifera), 5'ss of exon 9
TGCTGTATCACTTTTCATGGAGTTGCTGGGTTTCTCTACACAAAAATGGCTCACTGCTGGAGGTCTTGGGACAGTTTTGATTACTCTTGCTGGCCGAGAGgtgaaacctaattctcattttaattactggtttcttcggaatatccactgttagctttagacgttccttttcctgttttatgctaaagatatttcataaaaactgagtttttttttgttttttggttccag---------------------
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TGCTGTTTCATTGTTCATGGAGTTGTTGGGTTTCTCTACCCAGAAATGGCTCACTGCTGGAGGTCTTGGGACTGTATTGCTAACACTTGCGGGTCGTGAGgtgcaaatt--tgtccatttaacacactgctatttatgaaacacacattttggttttcctgcatgcccaattatgtttcttttgccttgttccctcttcagatatggatcttacttatttcaaagcctgatttttttgcttatcatatccagMapped 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|125066043|gb|EL133055.1|EL133055EST: TGCTGGAGGTCTTGGGACAGTTTTGATTACTCTTGCTGGCCGAGAG ATTTTGACAAACTTTCTTTCAAGTGTTATGATTCATGCAACCCGGCCATTT
genomic: TGCTGGAGGTCTTGGGACAGTTTTGATTACTCTTGCTGGCCGAGAGgtgaaaccta ... ttggttccagATTTTGACAAACTTTCTTTCAAGTGTTATGATTCATGCAACCCGGCCATTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TGCTGTATCACTTTTCATGGAGTTGCTGGGTTTCTCTACACAAAAATGGCTCACTGCTGGAGGTCTTGGGACAGTTTTGATTACTCTTGCTGGCCGAGAGgtgaaacctaattctcattttaattactggtttcttcggaatatccactgttagctttagacgttccttttcctgttttatgctaaagatatttcataaaaactgagtttttttttgttttttggttccag
- - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG