Sequence
atgc intronic sequence ATGC exonic sequenceGGTATCAAAGAAGGATGGTATGATGGAGGAAGCATTGCATTTGCTGTGATTCTTGTGATTGTTGTGACGGgtaatttaacttgtttcacttttttctttttctttttaggtgtctacagacttgtttcacttaatataataattttgataatgactcttactgtgattttgatgctttcttctcctctgcag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G57110.2 |
intron # | 8 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os04g51610.3 (Oryza sativa), 5'ss of exon 7
GGTATCAAAGAAGGATGGTATGATGGAGGAAGCATTGCATTTGCTGTGATTCTTGTGATTGTTGTGACGGgtaatttaacttgtttcacttttttctttttctttttaggtgtctacagacttgtttcacttaatataataattttgataatgactcttactgtgattttgatgctttcttctcctctgcag
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GGGATAAAAGAAGGCTGGTATGATGGAGCAAGCATTGCTTTTGCTGTTCTCCTAGTTGTTGTTGTTACAGgta-tgtaattagttagatcaatcatcttacctgatta--tttctatgg--tcgattaatatgttaatccacttttagaaggtttatctgttgcattactgtcag-----------------
upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: LOC_Os02g08018.1 (Oryza sativa), 5'ss of exon 4
GGTATCAAAGAAGGATGGTATGATGGAGGAAGCATTGCATTTGCTGTGATTCTTGTGATTGTTGTGACGGgtaatttaacttgtttcacttttttctttttctttttaggtgtctacagacttgttt-cacttaatataataattttgataatgactcttactgtgattttgatgctttcttctcctctgcag
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GGCATCAAAGAAGGATGGTACGACGGTGCAAGCATTGCATTTGCGGTCTTTCTTGTCATACTTGTTACTGgtatgctattcttcgcctgttcatctctatgctaattgatcttctctaagcagttcaatagttgagatattaataggtgaatacaccatcattatacttt-----------------------
upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G140328_T02 (Zea mays), 5'ss of exon 7
GGTATCAAAGAAGGATGGTATGATGGAGGAAGCATTGCATTTGCTGTGATTCTTGTGATTGTTGTGACGGgtaatttaacttgtttcacttttttctttttctttttaggtgtctacagacttgtttcacttaatataataattttgataatgactcttactgtgattt-tgatgctttcttctcctctgcag
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GGCATAAAAGAAGGCTGGTATGATGGAGCGAGCATTGCCTTTGCTGTTCTTCTAGTTGTATTTGTTACAGgtgtgccactatg----acttttctctgactttct----gtgttctttgtcatataacaagcagtgtgtttctattcacatcaaatcatcaagtaatatatgataaaa---------------
upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GRMZM2G391042_T02 (Zea mays), 5'ss of exon 7
GGTATCAAAGAAGGATGGTATGATGGAGGAAGCATTGCATTTGCTGTGATTCTTGTGATTGTTGTGACGGgtaatttaacttgtttcacttttttctttttctttttaggtgtctacagacttgtttca-cttaatataataattttgataatgactcttactgtgattttgatgctttcttctcctctgcag
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GGCATAAAAGAAGGCTGGTATGATGGAGCGAGCATTGCCTTTGCTGTTCTTCTAGTTGTATTTGTTACAGgtgtgccactatgactt--ttctctgattttctgtgttctttgtcatatactcccttcatcctaatatataaggc---gtaatcactttttattcaagtcctaca------------------
upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA09G06890.1 (Glycine max), 5'ss of exon 6
GGTATCAAAGAAGGATGGTATGATGGAGGAAGCATTGCATTTGCTGTGATTCTTGTGATTGTTGTGACGGgtaat---ttaacttgtttcacttttttctttttctttttaggtgtctacagacttgtttca--cttaatataataattttgataatgactcttactgtgattttgatgctttcttctcctctgcag
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GGTATCAAGGAAGGATGGTATGATGGGGGAAGCATTGCTTTTGCAGTTATTCTTGTTATTGTTGTTACAGgtattatattggctttgtaaggtatatagtgcatagtgttagtttacttggtctttgactctattttgaaatttcctctttgataa--atctttggtgtaat-------------------------
upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA15G18180.1 (Glycine max), 5'ss of exon 6
GGTATCAAAGAAGGATGGTATGATGGAGGAAGCATTGCATTTGCTGTGATTCTTGTGATTGTTGTGACGGgtaat---ttaacttgtttcacttttttctttttctttttaggtgtctacagacttgtttcacttaatataataattttgataatgactcttactgtgattttgatgctttcttctcctctgcag
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GGTATCAAGGAAGGATGGTATGATGGGGGAAGCATTGCTTTTGCAGTTATTCTTGTTATTGTTGTTACAGgtattatattggctttgtaaggtatataatgcattgtgttagtttacttgttctttgactgttttgcgatttcctctttgataa--atctttggtgtaatct-----------------------
upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA13G00420.1 (Glycine max), 5'ss of exon 6
GGTATCAAAGAAGGATGGTATGATGGAGGAAGCATTGCATTTGCTGTGATTCTTGTGATTGTTGTGACGGgtaatttaacttgtttcacttttttctttttctttttaggtgtctacagacttgtttcacttaatataataattttgataatgactcttactgtgattttga-tgctttcttctcctctgcag
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GGTCTTAAGGAAGGATGGTATGATGGGGGAAGCATTGCTTTTGCAGTTATTCTTGTTATTCTTGTTACAGgta--ttaatatattg----tctttggaaagttgataatgcattaaagcatttagtt-acatgttttaa-gattctgctctgaatttgctatttgatacaaaatgcat---------------
upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: GLYMA17G06520.1 (Glycine max), 5'ss of exon 9
GGTATCAAAGAAGGATGGTATGATGGAGGAAGCATTGCATTTGCTGTGATTCTTGTGATTGTTGTGACGGgtaat--ttaacttgtttcacttttttctttttctttttaggtgtctacagacttgtttcacttaatataataattttgataatgactcttactgtgattttgatgctttcttctcctctgcag
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GGTATTAAGGAAGGATGGTATGACGGGGGAAGCATTGCTTTTGCAGTTATTCTTGTTATTCTTGTTACAGgtattgatatagtgcctttggaaagttgataatgcattaaagcatttagttacatgctt----taagattctgcttctgaattttctatttgatataaaatgca--------------------
upper sequence: AT5G57110.2 (Arabidopsis thaliana), 5'ss of exon 8
lower sequence: Vv11s0052g00320.t01 (Vitis vinifera), 5'ss of exon 9
GGTATCAAAGAAGGATGGTATGATGGAGGAAGCATTGCATTTGCTGTGATTCTTGTGATTGTTGTGACGGgtaatttaacttgtttcacttttttctttttctttttaggtgt-ctacagacttgt----ttcacttaatataataattttgataatgactcttactgtgattttgatgctttcttctcctctgcag
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GGTATTAAAGAAGGATGGTATGATGGGGGGAGCATTGCCTTTGCAGTTATTCTTGTTATAGTTGTTACAGgta--ttaaattgtacttatttttaaacttaccatttcctcatactactgatccgtaattttttttctatctggtaattgtgggaaga---cagactaggagtcc----------------------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|164121461|gb|ES004865.1|ES004865EST: TGATGGAGGAAGCATTGCATTTGCTGTGATTCTTGTGATTGTTGTGACGG CTGTCAGTGACTACAAACNGTCGCTCC
genomic: TGATGGAGGAAGCATTGCATTTGCTGTGATTCTTGTGATTGTTGTGACGGgtaatttaac ... tcctctgcagCTGTCAGTGACTACAAACAGTCGCTCC
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GGTATCAAAGAAGGATGGTATGATGGAGGAAGCATTGCATTTGCTGTGATTCTTGTGATTGTTGTGACGGgtaatttaacttgtttcacttttttctttttctttttaggtgtctacagacttgtttcacttaatataataattttgataatgactcttactgtgattttgatgctttcttctcctctgcag
- - - - - - - - - - GATGGA
- - - - - - - - - - - TGGAGG
- - - - - - - - - - - - GGAGGA