Sequence
atgc intronic sequence ATGC exonic sequenceGAGGTTATGGAACAATGGAGGAGCTGTTGGAGATGATAACATGGTCACAACTTGGTATCCATAAGAAGACGgtatttttaacatttcctttgctcagtcaaagaagtatgctactaattcctctgttgattagtttgggattgtttctgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G11950.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G11950.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os01g51210.2 (Oryza sativa), 5'ss of exon 4
GAGGTTATGGAACAATGGAGGAGCTGTTGGAGATGATAACATGGTCACAACTTGGTATCCATAAGAAGACGgtatttttaacatttcctttgctcagtcaaagaagtatgctactaattcctctgttgattagtttgggattgtttctgtag----------
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GAGGGTATGGAACAATGGAGGAGTTGTTAGAGATGATAACTTGGTCACAACTTGGAATTCATGACAAACCAgtgagtttaag--tacataggctggctatgacaattgacaaacaagttttcctacaaataatcaaaggaactgatcattgacttacaacag
upper sequence: AT5G11950.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: LOC_Os05g46360.2 (Oryza sativa), 5'ss of exon 5
GAGGTTATGGAACAATGGAGGAGCTGTTGGAGATGATAACATGGTCACAACTTGGTATCCATAAGAAGACGgta----tttttaacatttcctttgctcagt------caaagaagtatgctactaattcctctgttgattagtttgggattgtttc---tgtag--------------------
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GGGGCTATGGAACAATGGAGGAGCTGTTAGAGATGATAACATGGTGCCAACTTGGAATTCATGACAAGCCAgtaagcataattgagatatttgatactagatatattgtaaacggcaaagtagcataatgctttgttgatggattaaggtctccatcacatataaaaccttggccaattgaacag
upper sequence: AT5G11950.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GRMZM2G008726_T01 (Zea mays), 5'ss of exon 5
GAGGTTATGGAACAATGGAGGAGCTGTTGGAGATGATAACATGGTCACAACTTGGTATCCATAAGAAGACGgt-atttttaacat-ttcctttgctcagtcaaagaagtatgcta-ctaat-tcctctgt-tgattagtttgggattgt--ttctgtag
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GAGGGTACGGAACAATGGAAGAACTGTTAGAGATGATAACGTGGTCACAGCTCGGAATTCATGACAAACCAgtgagtatcagtatatggccgtgaacaatgtatgtagctcagtagctcatgtgctctgaacgagtaacttaatcttggcatactgcag
upper sequence: AT5G11950.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA06G05560.1 (Glycine max), 5'ss of exon 5
GAGGTTATGGAACAATGGAGGAGCTGTTGGAGATGATAACATGGTCACAACTTGGTATCCATAAGAAGACGgtatttttaacatttcctttgctcagtcaaagaagtatgctactaattcctctgttgattagtttgggattgtttctgtag--
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GAGGATATGGAACCATGGAGGAGCTGTTGGAGATGATAACTTGGGCCCAACTTGGAATCCATAAAAAACCGgtaacat-agtatttttactgtgtagtacaaagtctttaata-taacaatcaagt--gctaactcaatattcatactgcacag
upper sequence: AT5G11950.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA04G05550.1 (Glycine max), 5'ss of exon 5
GAGGTTATGGAACAATGGAGGAGCTGTTGGAGATGATAACATGGTCACAACTTGGTATCCATAAGAAGACGgtatttttaacatttcctttgctcagtcaaagaagtatgctactaattcctctgttgattagtttgggattgtttctgtag--
|||| |||||||| ||||| |||||||||||||||||||| ||| | |||||||| |||||||| || ||||| | | |||| | ||| || | | | || ||| || || | ||| | ||| |
GAGGATATGGAACCATGGAAGAGCTGTTGGAGATGATAACTTGGGCCCAACTTGGAATCCATAAAAAACCGgtaacat-agtatttttactctgtagtacaaaatctttaata-taacaatcaagt--gctaactcaaaattcatactgcacag
upper sequence: AT5G11950.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA14G11070.1 (Glycine max), 5'ss of exon 5
GAGGTTATGGAACAATGGAGGAGCTGTTGGAGATGATAACATGGTCACAACTTGGTATCCATAAGAAGACGgtattttta-acatttcctttgctcagtcaaagaagtatgctactaattcctctgttgattagtttgggattgtt-tctgtag
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GAGGATATGGAACTATGGAAGAGCTGTTGGAGATGATAACTTGGGCTCAACTTGGAATTCATAAAAAACAGgtaacctgatgttgttactgtgtaggataaaatccttactatactaatataatcatgtgctaactcagtattatcctgcacag
upper sequence: AT5G11950.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA17G34510.1 (Glycine max), 5'ss of exon 5
GAGGTTATGGAACAATGGAGGAGCTGTTGGAGATGATAACATGGTCACAACTTGGTATCCATAAGAAGACGgtatttttaacatttcctttgctcagtcaaagaagtatgctactaattcctctgttgattagtttgggattgtt-tctgtag
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GAGGATATGGAACTATGGAAGAGCTGTTGGAGATGATAACTTGGGCTCAACTTGGAATTCATAAAAAACCGgtaacctgatgttgttacttagtagtataaatccttgctatactaatataatcatgtgctaactcagaatcatcctccacagMapped 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|19740964|gb|AU226317.1|AU226317EST: AGCTGTTGGAGATGATAACATGGTCACAACTTGGTATCCATAAGAAGACG GTTGGTCTATTGAATGTTGATGGGTACTATAACAATTTGCTTGCTTTATTT
genomic: AGCTGTTGGAGATGATAACATGGTCACAACTTGGTATCCATAAGAAGACGgtatttttaa ... gtttctgtagGTTGGTCTATTGAATGTTGATGGGTACTATAACAATTTGCTTGCTTTATTT
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GAGGTTATGGAACAATGGAGGAGCTGTTGGAGATGATAACATGGTCACAACTTGGTATCCATAAGAAGACGgtatttttaacatttcctttgctcagtcaaagaagtatgctactaattcctctgttgattagtttgggattgtttctgtag
- - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG