Sequence
atgc intronic sequence ATGC exonic sequenceGGGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATCgtaagtgtcttatacctcataggtcttctcgtttatgtcaagcccttgtgaccttcgttgtgtgtactcagtttctttgttcgatttatttag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G32120.1 |
intron # | 9 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G32120.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GRMZM2G000393_T02 (Zea mays), 5'ss of exon 8
GGGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATCgtaagt-gtcttatacctcataggtcttctcgtttatgtcaagcccttgtgaccttcgttgtgtgtactcagtttctttgttcgatttatttag----------
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GGGCCAACAATGGTATGAACCTGAGTGGTGGAAATTTGGAGATTCAAAAACgtgagttaatttccatcttctcattctcctgaattagtttattcattt----tcctgttaggagatactacctcccgttcacaaatatatgacactgttgattt
upper sequence: AT4G32120.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA14G14000.1 (Glycine max), 5'ss of exon 9
GGGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATCgtaagtgtcttatacctcata------ggtcttctcgtttatgtcaagcccttgtgacctt-cgttgtgtgtactcagtttctttgttcgat-ttatttag
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GGGAAAGCCATGGTATGAACCTGATTGGTGGAAATTTGGGGATGAAAAATCgtaagtaatataccttttgcacgagatgatttggtgatttattttattatattatactggaatgatcttcgatgttatcgtcttaaattgataccatttc-
upper sequence: AT4G32120.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: GLYMA17G32180.1 (Glycine max), 5'ss of exon 10
GGGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATCgtaagtgtcttatacctcataggtcttctcgtttatgtcaagcccttgtgacct-tcgttgtgtgtactcagtttctttgtt--cgatttatttag-----
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GGGAAAGCCATGGTATGAACCAGATTGGTGGAAATTTGGGGATGAAAAATCgtaagtaatatatataccttttgcacgagaagatttgatgatttattttattttattgacgc-tggaatgatcttcaatgttattgtcttaaatagataca
upper sequence: AT4G32120.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: Vv04s0008g06480.t01 (Vitis vinifera), 5'ss of exon 9
GGGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATCgtaagtgtcttatacctcataggtc--ttctcgtttatgtcaagcccttgtgaccttcgttgtgtgtactcagtttctttgttcgatttatttag-------
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GGGAAGGCCGTGGTATGAACCTGAATGGTGGAAATTCGGGGATGAGAAATCgtaagtgaacttgcttgtgtaggagaatagtgtgttatat-acacctaaattatatttgtcatacattttgaaagtctt-atttgcactgttgagcgtgggt
upper sequence: AT4G32120.1 (Arabidopsis thaliana), 5'ss of exon 9
lower sequence: PP1S101_254V6.1 (Physcomitrella patens), 5'ss of exon 8
GGGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATCgtaagtgtcttatacctcataggt-cttctcgttt-atgtcaagcccttgtgaccttcgttgtgtgtactcagtttctttgttcgatttatttag--------
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GAATGCTCAATGGTATGAGCCTGACTGGTGGAAGTTTGGAGAGCAAAAGTCAGAgtgagtatggacgcttgagttacgtatcgtgtgatactgaaatatctagactttaagcatcttcgcttaatgtgccttttactgtcatagtgttataaatMapped 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|86087448|gb|DR383207.1|DR383207EST: GGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATG GTATTTCCGTCATGCAACTGGTTCGCTGGTAATACTCTCAAAGAATCTGGC
genomic: GGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATCgtaagtgtct ... atttatttagGTATTTCCGTCATGCAACTGGTTCGCTGGTAATACTCTCAAAGAATCTGGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGGAAGTCAATGGTATGAGCCTGAGTGGTGGAAATTTGGGGACGACAAATCgtaagtgtcttatacctcataggtcttctcgtttatgtcaagcccttgtgaccttcgttgtgtgtactcagtttctttgttcgatttatttag
- - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - GGTGGA