Sequence
atgc intronic sequence ATGC exonic sequenceTCTACTAACGAGAGTTGAAGATATTATACCAAAATGGAAGATAGTTCCTACAAAAGATGTTATCGATGCTGCCTTCAAGGATCCGGTCAAGCGCGAAGAGgtatattaatcgaatcagtcaacacataactaaaaagtgtactaataaaaaacttggttcctaaaatgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G62860.1 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G62860.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: GLYMA03G37290.1 (Glycine max), 5'ss of exon 5
TCTACTAACGAGAGTTGAAGATATTATACCAAAATGGAAGATAGTTCCTACAAAAGATGTTATCGATGCTGCCTTCAAGGATCCGGTCAAGCGCGAA-----GAGgtatat-----------taatcgaatcagtcaac-acataactaaaaagtgtactaataaaaaacttggttcctaaaatgtag------------------------
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CATATTAACTAAAGTTGAAGATATAATCCCAAAGTGGAAGATAGTTCCCACAAAGGATGTCATCGATTCAGCCTTTAAAGACCCTGCTAAACGAGAGAGGgtgaggtttatattgtaaattgtaattgagatgcttgcttaaatgacttaaagtcttgttgatttagtgctagggttaactaatgtgcctcttcctatgagggtcattgcag
upper sequence: AT3G62860.1 (Arabidopsis thaliana), 5'ss of exon 6
lower sequence: Vv07s0005g00510.t01 (Vitis vinifera), 5'ss of exon 6
TCTACTAACGAGAGTTGAAGATATTATACCAAAATGGAAGATAGTTCCTACAAAAGATGTTATCGATGCTGCCTTCAAGGATCCGGTCAAGCGCGAAGAGgtatattaatcgaatcagt----caacacataa--ctaaaaagtgtactaataaaaaacttggttcctaaaatgtag--------------------------
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TATATTAACAAAAGTGGAAGAGATAATACCAAAGTGGAAGATAGTGCCCACAAAGGATGTAATAGATTCTGCATTCAAGGACCCTGTTAAGAGAGAAGAGgtg-atgatatatatctgttttccaacttctagtcccatatatttctctcatgtaaacgtgggattctgaacagcattgctttctgtcgttaataatgcgcagMapped 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|86078644|gb|DR374401.1|DR374401EST: CAAAAGATGTTATCGATGCTGCCTTCAAGGATCCGGTCAAGCGCGAAGAG ATAAGGAACAACAAGCTGATATATCAAGACAAGCCAAGACTTAAAACCGCA
genomic: CAAAAGATGTTATCGATGCTGCCTTCAAGGATCCGGTCAAGCGCGAAGAGgtatattaat ... taaaatgtagATAAGGAACAACAAGCTGATATATCAAGACAAGCCAAGACTTAAAACCGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
TCTACTAACGAGAGTTGAAGATATTATACCAAAATGGAAGATAGTTCCTACAAAAGATGTTATCGATGCTGCCTTCAAGGATCCGGTCAAGCGCGAAGAGgtatattaatcgaatcagtcaacacataactaaaaagtgtactaataaaaaacttggttcctaaaatgtag
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA