Sequence
atgc intronic sequence ATGC exonic sequenceGACATCTCTCAGAAAACACAATGACAAGTCACCCATATCTGGGAAGTCCATTCTTTACCTTAATCGCCACCAAACTGAAGAATGGAAAGGATGGATGCAGgcaagtttctcttgattattcccaatatgatcatttcctttttctggccggtaactgtatggagctcttactgccgctggctatatacagtctcatgacttactttttaacag
Basic information
species | Arabidopsis thaliana |
transcript | AT5G46340.1 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G46340.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os05g50510.1 (Oryza sativa), 5'ss of exon 6
GACATCTCTCAGAAAACACAATGACAAGTCACCCATATCTGGGAAGTCCATTCTTTACCTTAATCGCCACCAAACTGAAGAATGGAAAGGATGGATGCAGgcaagt---ttctcttgattattcccaatatgatcatttcctttttctggccggtaactgtatggagctcttactgccgctggctatatacagtctcatgacttactttttaacag
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TACTTCACTTAAGAAGCACAATGAAAAATCAGCTTTCACTGGAAAGTCAATACTCTATCTTAATCGTCACCAAACTGAGGAATGGAAAGGGTGGATGCAGgttagtgactttacttcactgcttctgttcttttagtaaatgtgatttcagttatttctgtactgagtttttatagcgcatggttatcatccttcctgtt----------------
upper sequence: AT5G46340.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os01g44040.1 (Oryza sativa), 5'ss of exon 6
GACATCTCTCAGAAAACACAATGACAAGTCACCCATATCTGGGAAGTCCATTCTTTACCTTAATCGCCACCAAACTGAAGAATGGAAAGGATGGATGCAGgcaagtttctcttgattattcccaatatgatcatttcctttttctggccggtaactgtatggagctcttactgccgctggctatatacagtctcatgacttactttttaacag-
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AACATCACTTAAGAAGCACCATGACAAATCAGCATTCTCAGGGAAATCTATACTCTATCTTAATCGCCATCAAACAGAGGAATGGAAAGGTTGGATGCAGgttagtgatt--taaataattataaaattttgaatccact----------gtattttttttgtattctttcttttgttgtcc-tgttta-tgttacaatttagtcaaaggaaca
upper sequence: AT5G46340.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G413162_T01 (Zea mays), 5'ss of exon 6
GACATCTCTCAGAAAACACAATGACAAGTCACCCATATCTGGGAAGTCCATTCTTTACCTTAATCGCCACCAAACTGAAGAATGGAAAGGATGGATGCAGgcaagtttctcttgattattcccaatatgatcatttcctttttctggc-cggtaactgtatggagctcttactgccgctggctatatacagtctcatgacttactttttaacag
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TACTTCACTAAAGAAGCATCATGAAAAATCAGCATTTTCAGGAAAGTCTATACTCTATCTTAATCGCCACCAAACTGAGGAATGGAAAGGGTGGATGCAGgttagt-------gattttgcttcac----ttatttatttttcttgatgttgtgatgctttggtatctatatcataagag----------------------------------
upper sequence: AT5G46340.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA05G25780.2 (Glycine max), 5'ss of exon 7
GACATCTCTCAGAAAACACAATGACAAGTCACCCATATCTGGGAAGTCCATTCTTTACCTTAATCGCCACCAAACTGAAGAATGGAAAGGATGGATGCAGgcaagtttctcttgattattcccaatatgatcatttcctttttctggccggtaactgtatggagctcttactgccgctggctatat-acagtctcatgacttactttttaacag
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GAGTTCTTTGAAGAAACATAATGACTCATCAACATTTTCTGGAAAAAACATACTTTACCTTAATCGGCATCAAACAGAAGAGTGGAAAGGATGGATGCAGgtgagctctcctttttggat---gatgtaaaaaact------tgtaaacaaagatgctatact-ttcttcttgcctctaaaaaaattattgtttta-aactatttacttga---
upper sequence: AT5G46340.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA08G08730.1 (Glycine max), 5'ss of exon 7
GACATCTCTCAGAAAACACAATGACAAGTCACCCATATCTGGGAAGTCCATTCTTTACCTTAATCGCCACCAAACTGAAGAATGGAAAGGATGGATGCAGgcaagtttctcttgattattcccaatatgatcatttcctttttctggccggtaactgtatggagctcttactgccgctggctatatacagtctcatg--acttactttttaacag
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GAGTTCTTTGAAGAAACATAATGACTCATCAACATTTTCTGGAAAAAATATACTTTACCTTAACCGACATCAAACAGAGGAGTGGAAAGGATGGATGCAGgtgagctctcctt---tctggctgatgtaaataacttgtaaacaaagatg----ctatattttcttcttgcctctaaaaaaaaaatattgtttcaaagtatttactt--------
upper sequence: AT5G46340.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv10s0003g02820.t01 (Vitis vinifera), 5'ss of exon 6
GACATCTCTCAGAAAACACAATGACAAGTCACCCATATCTGGGAAGTCCATTCTTTACCTTAATCGCCACCAAACTGAAGAATGGAAAGGATGGATGCAGgcaagtttctcttgatt-attcccaatatgatcatttcctttttctggccggtaactgtatggagctcttactgccgctggctatatacagtctcatgacttactttttaacag
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----TCTCTTAAGAAACATCATGACAAGTCAGCATTCTCTGGAAAGGCCTTACTTTATCTTAACCGGCATCAAACTGAGGAGTGGAAAGGATGGATGCAGGCAAgtttctcaaaactcaactttaatgcggtgatg--ctttacctaat-agtttttgca-attgcttttgttttctttaggattcttttgtactctgcttaacctga------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|116424668|gb|EG467260.1|EG467260EST: TTCTTTACCTTAATCGCCACCAAACTGAAGAATGGAAAGGATGGATGCAG GTTTTGTTCTTAATGTATCACTACTTTGCTGCGGCCGAGATATACAACGCA
genomic: TTCTTTACCTTAATCGCCACCAAACTGAAGAATGGAAAGGATGGATGCAGgcaagtttct ... tttttaacagGTTTTGTTCTTAATGTATCACTACTTTGCTGCGGCCGAGATATACAACGCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GACATCTCTCAGAAAACACAATGACAAGTCACCCATATCTGGGAAGTCCATTCTTTACCTTAATCGCCACCAAACTGAAGAATGGAAAGGATGGATGCAGgcaagtttctcttgattattcccaatatgatcatttcctttttctggccggtaactgtatggagctcttactgccgctggctatatacagtctcatgacttactttttaacag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA