Sequence
atgc intronic sequence ATGC exonic sequenceGAAGTAATAGGGAACTCAGTGAATGGGACTACATATGCTGGACTAAGAGGAAGAACAACTGGAGCTCCTCAGAATCACTGgtgagaggaaaaatcacactcccaaattaaagtatctatttctatttctttgaggaaaagttaaactatcatataaacacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G62530.1 |
intron # | 15 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G62530.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA05G01300.1 (Glycine max), 5'ss of exon 15
GAAGTAATAGGGAACTCAGTGAATGGGACTACATATGCTGGACTAAGAGGAAGAACAACTGGAGCTCCTCAGAATCACTGgtgagaggaaaaatcacactcccaaattaaagtatctatttctatttctttgaggaaaagttaaactatcatataaacacag--------------
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GAAGTTGTTGGCAATTCAGTAAATGGTACTACTTATGCTGGTCTAAGAGCAAGGACAACCGGAGCTCCTCAGAATCATTGgtaactcaa-----tatttttttgagtttgt---tttacttgtacatgagtaagaaatgatgtttcgatttgttgaaaacaataattctattacag
upper sequence: AT5G62530.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA17G10610.1 (Glycine max), 5'ss of exon 15
GAAGTAATAGGGAACTCAGTGAATGGGACTACATATGCTGGACTAAGAGGAAGAACAACTGGAGCTCCTCAGAATCACTGgtgagaggaaaaatcacactcccaaattaaagtatctatttctatt------tctttgaggaaaagttaaactatcatataaacacag
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GAAGTCATTGGCAAATCAGTAAATGGTACTACTTATGCTGGTTTAAGAGCAAGGACGACCGGAGCTCCACAGAATCACTGgtaaattgatatttttttcaacttgttttacttgtacataactaagaaatgatgctttagttagttgaaaataataatttcattgtag
upper sequence: AT5G62530.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: GLYMA05G01290.1 (Glycine max), 5'ss of exon 15
GAAGTAATAGGGAACTCAGTGAATGGGACTACATATGCTGGACTAAGAGGAAGAACAACTGGAGCTCCTCAGAATCACTGgtgagaggaaaaatcacactcccaaattaaagtatctatttctat-------ttctttgaggaaaagttaaactatcatataaacacag
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GAAGTCATTGGCCAATCAGTAAATGGTACTGCTTATGCTGGTTTAAGAGCAAGGACAACCGGAGCTCCACAGAATCACTGgtaaattgatatttttttaaacttgttttacctgtacataactaagaaatgattctttaatttgttga-aaataataatttcattgcag
upper sequence: AT5G62530.1 (Arabidopsis thaliana), 5'ss of exon 15
lower sequence: Vv17s0000g05800.t01 (Vitis vinifera), 5'ss of exon 15
GAAGTAATAGGGAACTCAGTGAATGGGACTACATATGCTGGACTAAGAGGAAGAACAACTGGAGCTCCTCAGAATCACTGgtgagaggaaaaatca-cactcccaaattaaagtatct-atttctatttctttgaggaaaagttaaactatcatataaacacag------------
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GAAGTGATTGGGAAATCAGTGAACGGGACTACTTATGCTGGACTAAGGGCAAGAACAACAGGAGCTCCACAGAATCACTGgtatgtagaagatccaacacttcctttcttgcctgcttcacaatgacattgtcaaaagtacgtcaatatatgtggaaaacaatggttttgtggcagMapped 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|116454778|gb|EG497370.1|EG497370EST: GCATATGCTGGACTAAGAGGAAGAACAACTGGAGCTCCTCAGAATCACTG GTTTGGACCTGCGGGGGACCCGAGAGGGGCCGGGATAGGGACACCAGAGGC
genomic: ACATATGCTGGACTAAGAGGAAGAACAACTGGAGCTCCTCAGAATCACTGgtgagaggaa ... ataaacacagGTTTGGACCTGCGGGGGACCCGAGAGGGGCCGGGATAGGGACACCAGAGGC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAAGTAATAGGGAACTCAGTGAATGGGACTACATATGCTGGACTAAGAGGAAGAACAACTGGAGCTCCTCAGAATCACTGgtgagaggaaaaatcacactcccaaattaaagtatctatttctatttctttgaggaaaagttaaactatcatataaacacag
- - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC