Sequence
atgc intronic sequence ATGC exonic sequenceCCCCCAGAACCTGTTGGTAGGCGTAACCTACCTTCAGATGCATCCAACACTTTATATGTTGAAGGACTTCCTTCTAATTGCTCTAGGAGGGAAGTAGCTCgtatcctattttatgacacattacaagtttttttcttttacggaaactatttctctccactttccttaaccgatgtctag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G76940.2 |
intron # | 2 |
splice site | 5' |
intron type | U12 (go to U12 genes for details) |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G76940.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA16G28620.2 (Glycine max), 5'ss of exon 3
CCCCCAGAACCTGTTGGTAGGCGTAACCT--ACCTTCAGATGCATCCAACACTTTATATGTTGAAGGACTTCCTTCTAATTGCTCTAGGAGGGAAGTAGCTCgtatcctatt--ttatgacaca----ttacaagtttttttcttttacggaaactatttct---ctccactttccttaaccga--tgtctag--------------------
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--TCCAGACCTGGACCTGAGACAGGATCTCTACCTCCAGATGCTTCAAGTACTTTATATGTTGAAGGTCTCCCTTCTGATAGCACCAGAAGGGAAGTAGCTCgtatccttttcattttgatgcaatgcttaggaattttcatcttgcttttcatctatttctgagtttcattgattttagttcagttatttatattccttaacctcaccttag
upper sequence: AT1G76940.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: GLYMA02G09230.2 (Glycine max), 5'ss of exon 2
CCCCCAGAACCTGTTGGTAGGCGTAACCT--ACCTTCAGATGCATCCAACACTTTATATGTTGAAGGACTTCCTTCTAATTGCTCTAGGAGGGAAGTAGCTCgtatcctatt--ttatgacacattac---aagtttttttcttttacggaaactatttctctccactttccttaaccgatgtctag---------------------------------
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--TCCAGACCTGGACCTGAGACAGTACCTCTACCTCCAGATGCTTCAAGTACTCTATATGTTGAAGGTCTCCCTTCTGATAGCACCAGAAGGGAAGTAGCTCgtatccttttcattttgatgcaatgcttaggaatttcatcttgctttttatctatttctg---agtttcattgatattagttcagttattcatatcatattccttaacatcaccttag
upper sequence: AT1G76940.1 (Arabidopsis thaliana), 5'ss of exon 3
lower sequence: Vv18s0166g00240.t01 (Vitis vinifera), 5'ss of exon 5
CCCCCAGAACCTGTTGGTAGGCG--TAACCTACCTTCAGATGCATCCAACACTTTATATGTTGAAGGACTTCCTTCTAATTGCTCTAGGAGGGAAGTAGCTCgtatcctattttatgaca---cattacaagtttttttcttttacggaaactatttctctccactttccttaaccgatgtctag--------------------------------------
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--ATCAGACCAAGCCGGGAAACGGCTCCTCTACCTCCTGATGCATCCAGCACTCTTTATGTTGAGGGGCTTCCTCCTGACAGCACAAGGAGGGAAGTAGCTCgtatccttcaagatgttataacattgccaaggaattattgtgattcatgtttttttcatcccattctttcaatctaaaccctcctgctgctatttgttgacattcctttacccaatcctagMapped 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|163981699|gb|ES133983.1|ES133983EST: TTTATATGTTGAAGGACTTCCTTCTAATTGCTCTAGGAGGGAAGTAGCTC ATATATTTCGACCTTTTTGTAGGATACAGAGAAGTGAGACTTGTGACCAAA
genomic: TTTATATGTTGAAGGACTTCCTTCTAATTGCTCTAGGAGGGAAGTAGCTCgtatcctatt ... cgatgtctagATATATTTCGACCTTTT-GTAGGATACAGAGAAGTGAGACTTGTGACCAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CCCCCAGAACCTGTTGGTAGGCGTAACCTACCTTCAGATGCATCCAACACTTTATATGTTGAAGGACTTCCTTCTAATTGCTCTAGGAGGGAAGTAGCTCgtatcctattttatgacacattacaagtttttttcttttacggaaactatttctctccactttccttaaccgatgtctag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG