Sequence
atgc intronic sequence ATGC exonic sequenceTATGAAGATCCAGTCCGCCAAGATGCTGCTCGAAAGACTGTTCCTAAAGACGAGCTTGAGGAGAAAGCATTGGTTTCTCTGGCCAAGgtttgtgtttatgttcatcgattaattgaactataagttctgacttctgatattgaaaatgcttgatgaaatttagaatttaaggttttaggttgatgtttactatattatgtgagattttttaactgatccaagcttttaacaaacgtttag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G49570.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G49570.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA19G43320.4 (Glycine max), 5'ss of exon 5
TATGAAGATCCAGTCCGCCAAGATGCTGCTCGAAAGACTGTTCCTAAAGACGAGCTTGAGGAGAAAGCATTGGTTTCTCTGGCCAAGgttt--gtgtttatgttcatcgattaattgaactataagttctgacttctgatattgaaaatgcttgatgaaatttagaatttaaggttttaggttgatgtttactatattatgtgagattttttaactgatccaagcttttaacaaacgtttag
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TATGAGGATGCAACACGGCAGGAGGCTGCTCGGAAGTCCGTTCCTGTGGAAGAGCTTGAGGAGAAAGCTTTGGTCTCTTTGGCCAAGgtaagagcatttatatttctctttcaagagaaca------tcttaattcataggacaaatatg-tagtttcattttagaggatg----tttatattgtgtttaagtaaaac--------------------------------------------
upper sequence: AT5G49570.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv14s0030g01930.t01 (Vitis vinifera), 5'ss of exon 5
TATGAAGATCCAGTCCGCCAAGATGCTGCTCGAAAGACTGTTCCTAAAGACGAGCTTGAGGAGAAAGCATTGGTTTCTCTGGCCAAGgtttgtgtttatgttcatcgattaattgaactataagttctgacttctgatat-tgaaaatgcttgatgaaatttagaatt---taaggttttaggttgatgtttactatattatgtgagattttttaactgatccaagcttttaacaaacgtttag
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TATGAAGATCCAAAGCGCCAGGAGGCAGCTAGGAAAACAGTTCCTGTGCTTGAGCTTGAGGAGAAAGCATTGGTTTCTTTAGCTAAGgtt-ggaactattttc-ttttttttttctctcgtgttttttaatattttattcatataaatattcattggacaatataattatgcataatttaaggataa-gt------------------------------------------------------Mapped 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|19875225|gb|AU236056.1|AU236056EST: TGTTTCCTAAAGACGAGCTTGAGGAGAAAGCATTGGTTTCTCTGGCCAAN GAAGGGAATTTTGAGCCATCCAAAGAGGAA-GAGACTACGCTTTCCTGCTT
genomic: TGTT-CCTAAAGACGAGCTTGAGGAGAAAGCATTGGTTTCTCTGGCCAAGgtttgtgttt ... aaacgtttagGAAGGGAATTTTGAGCCATCGAAAGAGGAAAGAGACTACGCTTTCCTGCTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TATGAAGATCCAGTCCGCCAAGATGCTGCTCGAAAGACTGTTCCTAAAGACGAGCTTGAGGAGAAAGCATTGGTTTCTCTGGCCAAGgtttgtgtttatgttcatcgattaattgaactataagttctgacttctgatattgaaaatgcttgatgaaatttagaatttaaggttttaggttgatgtttactatattatgtgagattttttaactgatccaagcttttaacaaacgtttag
- - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA