Sequence
atgc intronic sequence ATGC exonic sequenceAAAACTACACGAGGCTTGAAAACGTTGGGGCAGAGGATTATTATTGTAGATTCGAGTACAAGGCTGCTACTGGCGCATTTACCCCTGATCGAGTTGCTGTgtaagtagataaatagtaatcagatcagaactacgccttcttattacctggaatttccatgattttttatctgttgtgggttgttgttggttctgaag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G22140.1 |
intron # | 2 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G22140.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA06G34850.2 (Glycine max), 5'ss of exon 1
AAAACTACACGAGGCTTGAAAACGTTGGGGCAGAGGATTATTATTGTAGATTCGAGTACAAGGCTGCTACTGGCGCATTTACCCCTGATCGAGTTGCTGTgtaagtagataaatagtaatcagatcagaactacgccttcttattacctggaatt--tccatgattttttatctgttgtgggttgttgttggttctgaag---
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AGAACTACACTAAGCTTGAGAATGTGGGTGCTGAGGATTACTATTGTAGATTCGAGTACAAGGCCGCTTCTGGGGCTTTTACCCCTGACCGTGTTGCTGTgtgagttgttttttcctttttgaaaaaaaaatgtg---ttttggtccctcaaattgatgagagaaagttcgattttagtagtgcctatgagaatttaatacag
upper sequence: AT4G22140.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA12G35680.2 (Glycine max), 5'ss of exon 2
AAAACTACACGAGGCTTGAAAACGTTGGGGCAGAGGATTATTATTGTAGATTCGAGTACAAGGCTGCTACTGGCGCATTTACCCCTGATCGAGTTGCTGTgtaagtagataaatagtaatcagatcagaactacgccttcttattacctggaatttccatgattttttatctgttgtgggttgttgttg-gttctgaag
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AGAACTATACCAAGCTTGAGAATGTAGGTGCTGAGGATTACTATTGTAGGTTTGAGTACAAGGCTGCTACTGGGGCTTTCACGCCTGACCGTGTTGCTGTgtaagtttatttctgttttttttagtgagataatg--ttgtaagtgtttgaaatggtgggttttgttttgttgatttggttcggttttgtggtttgaag
upper sequence: AT4G22140.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA12G20180.1 (Glycine max), 5'ss of exon 2
AAAACTACACGAGGCTTGAAAACGTTGGGGCAGAGGATTATTATTGTAGATTCGAGTACAAGGCTGCTACTGGCGCATTTACCCCTGATCGAGTTGCTGTgtaagtagataaatagt-aatcagatcagaactacgccttcttattacctggaatttccatgattttt--tatctgttgtgggttgttgttggttctgaag
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AGAACTACACCAAGCTTGAGAATGTGGGTGCTGAGGATTACTATTGTAGATTCGAGTACAAGGCCGCCACCGGGGCTTTCACCCCTGACCGTGTTGCTGTgtgagtttttccctttttgaaaaaaatatgttttttccctcaaattatccagaaagttcgattttggtagtgcctatgagaatttaatacattttttggt-
upper sequence: AT4G22140.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: GLYMA13G34740.1 (Glycine max), 5'ss of exon 2
AAAACTACACGAGGCTTGAAAACGTTGGGGCAGAGGATTATTATTGTAGATTCGAGTACAAGGCTGCTACTGGCGCATTTACCCCTGATCGAGTTGCTGTgtaagtagataaatag-------taatcagatcagaac----tacgccttcttattacctggaatttccatgattttttatctgttgtgggttgttgttg-gttctgaag
| || || || | |||||| || || || || |||||||| |||||||| || |||||||| ||||| ||||| || || || ||||| || |||||||||||||| | || || | |||| | | | || | | | || ||| || ||| || | | | ||| | ||| ||| |||||
AGAATTATACCAAGCTTGAGAATGTAGGTGCTGAGGATTACTATTGTAGGTTTGAGTACAAAGCTGCCACTGGGGCTTTCACGCCTGACCGTGTTGCTGTgtaagtttttttatttctgtttttactgagataatggtgttgtttgtgttttaagtgtttgaaatggtgggttttgttttgttgatttagtttggttttgtgttttgaag
upper sequence: AT4G22140.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: Vv10s0116g00160.t01 (Vitis vinifera), 5'ss of exon 2
AAAACTACACGAGGCTTGAAAACGTTGGGGCAGAGGATTATTATTGTAGATTCGAGTACAAGGCTGCTACTGGCGCATTTACCCCTGATCGAGTTGCTGTgtaagtagataaatagtaatcagatcagaactacgccttcttattacctggaatttccatgattttttatctgttgtgggttgttg---ttggttctgaag
| ||||| || | ||||||||| |||||||| |||||||| |||||| | |||||||| ||||| |||||||| | || || || || ||||||||||||| ||| ||| | || | | || | || | | | ||| | ||| || | ||| || || |||||
AGAACTATACTAAGCTTGAAAATGTTGGGGCTGAGGATTACTATTGTCGGTTCGAGTATAAGGCAGCTACTGGGGGTTTCACGCCGGACCGAGTTGCTGTgtgagtttg-----agttgttttgctggattgatga----ttgatgattgaatgtactggtattcgtgggctgatgaatacttttgaattttgtattgaag
upper sequence: AT4G22140.1 (Arabidopsis thaliana), 5'ss of exon 2
lower sequence: PP1S307_14V6.1 (Physcomitrella patens), 5'ss of exon 2
AAAACTACACGAGGCTTGAAAACGTTGGGGCAGAGGATTATTATTGTAGATTCGAGTACAAGGCTGCTACTGGCGCATTTACCCCTGATCGAGTTGCTGTgtaagtagataaatagtaatcagatcagaactacgccttcttattacctggaatttccatgattttttatct--gttgtgggttgttgttggttctgaag
|||| ||||| | |||||| | || || | || ||||| | ||| | || || ||||||||| ||||||||| ||| || ||||||||||| |||||||| || | | | || | | | | || || | | | | || | | ||| | || | | | | || |
AAAATTACACTAAGCTTGACAGTGTCGGTACTGAAGATTACTTCTGTCGCTTTGAATACAAGGCTTCTACTGGCGGATTCACTCCTGATCGAGTGGCTGTgtacgtcatttttcactctacatgtttcttttccttatatacgtttggtgaagtaacaaggaactcatctctcggcggtcgcatagtcgtaacgctacatMapped 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|124981359|gb|EL054233.1|EL054233EST: CGCATTTACCCCTGATCGAGTTGCTGTT GTACTGCAAATGTGAAATGCCTTACAATCCAGACGATCTCATGGTGCAGT
genomic: CGCATTTACCCCTGATCGAGTTGCTG-Tgtaagtagat ... ggttctgaagGTACTGCAAATGTGAAATGCCTTACAATCCAGACGATCTCATGGTGCAGT
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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
AAAACTACACGAGGCTTGAAAACGTTGGGGCAGAGGATTATTATTGTAGATTCGAGTACAAGGCTGCTACTGGCGCATTTACCCCTGATCGAGTTGCTGTgtaagtagataaatagtaatcagatcagaactacgccttcttattacctggaatttccatgattttttatctgttgtgggttgttgttggttctgaag
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