Sequence
atgc intronic sequence ATGC exonic sequence...gttgaattgttccgtttgtggtttctgattctgaaccgttgggaaactataatcggtgatggatagttgaatgtaatatttttaccttattttctttaagGAACCAAGCTGATGTCGATGCTCTTATGCTGGAACTGGATGGGACCCCAAACAAGTCGAAACTCGGGGCTAATGCGATATTAGGAGTGTCATTGAGCGTT
Basic information
species | Arabidopsis thaliana |
transcript | AT1G74030.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G74030.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA06G23080.1 (Glycine max), 3'ss of exon 1
gttgaattgttccgt--ttgtggtttctgattctgaaccgttgggaaactataatcg--gtgatggatagttgaatgtaatatttttaccttattttctttaagGAACCAAGCTGATGTCGATGCTCTTATGCTGGAACTGGATGGGACCCCAAACAAGTCGAAACTCGGGGCTAATGCGATATTAGGAGTGTCATTGAGCGTT
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--aaacttgttttatatttacatatactcttaacaaagatattgggttctgtttttgaagttttgggcagtacggc-tgatatttacggct-gtgtttgtcaagGAATCAAGCTGATGTGGATGCTATTATGCTGGAAATTGATGGAACTCCTAACAAATCAAAACTAGGGGCTAATGCAATATTGGGAGTTTCACTGAGTGTA
upper sequence: AT1G74030.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA18G22780.1 (Glycine max), 3'ss of exon 2
-gttgaattgttccgtttgtggtttctgattctgaaccgttgggaaactataatcggtgatggatagt-tgaatgtaatattt-ttaccttattttctttaagGAACCAAGCTGATGTCGATGCTCTTATGCTGGAACTGGATGGGACCCCAAACAAGTCGAAACTCGGGGCTAATGCGATATTAGGAGTGTCATTGAGCGTT
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gattttatatttacatatactcttctta--ccaaagatattgggtt-ctgtttttgaatttttgtgttgtacagctgatatttatggctctgtgtttgtcaagGAATCAAGCTGATGTTGATGCTATTATGCTGGAAATTGATGGAACTCCTAACAAATCAAAACTAGGGGCTAATGCAATATTGGGAGTTTCGCTGAGTGTA
upper sequence: AT1G74030.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: EFJ26799 (Selaginella moellendorffii), 3'ss of exon 1
gttgaattgttccgtttgtggtttctgattctgaaccgttgggaaactataatcggtgatggatagttgaatgtaatatttttaccttattttctttaagGAACCAAGCTGATGTCGATGCTCTTATGCTGGAACTGGATGGGACCCCAAACAAGTCGAAACTCGGGGCTAATGCGATATTAGGAGTGTCATTGAGCGTT
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------------------------gtagcttt---tctctaaaagcttacagtttttctttgttctcctgccaatcaacttatg---tgcgagctttcagGAACCAGAAGGATGTGGACAACATTATGCTGGAGCTGGATGGGACGCCAAACAAGTCGAAGCTTGGAGCGAATGCCATACTTGGTGTCTCCCTGAGCGTG
upper sequence: AT1G74030.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: EFJ26490 (Selaginella moellendorffii), 3'ss of exon 2
gttgaattgttccgtttgtggtttctgattctgaaccgttgggaaactataatcggtgatggatagttgaatgtaatatttttaccttattttctttaagGAACCAAGCTGATGTCGATGCTCTTATGCTGGAACTGGATGGGACCCCAAACAAGTCGAAACTCGGGGCTAATGCGATATTAGGAGTGTCATTGAGCGTT
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-----------------gtagcttttt-ttctaaaagctt---acatttttttctttgttctcctgccaatca----acttatg---tgcgagctttcagGAACCAGAAGGATGTGGACAACATTATGCTGGAGCTGGATGGGACGCCAAACAAGTCGAAGCTTGGAGCGAATGCCATACTTGGTGTCTCCCTGAGCGTGMapped 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|47832245|gb|CK121929.1|CK121929EST: AAAAACATCAATGAACTTGTGGCTCCAAAACTCATTGGAGTTGACGTTAG GAACCAAGCTGATGTCGATGCTCTTATGCTGGAACTGGATGGGACCCCAAA
genomic: AAAAACATCAATGAACTTGTGGCTCCAAAACTCATTGGAGTTGACGTTAGgtgagaataa ... tttctttaagGAACCAAGCTGATGTCGATGCTCTTATGCTGGAACTGGATGGGACCCCAAA
EST:
gi|47831124|gb|CK120808.1|CK120808EST: AAAAACATCAATGAACTTGTGGCTCCAAAACTCATTGGAGTTGACGTTAG GAACCAAGCTGATGTCGATGCTCTTATGCTGGAACTGGATGGGACCCCAAA
genomic: AAAAACATCAATGAACTTGTGGCTCCAAAACTCATTGGAGTTGACGTTAGgtgagaataa ... tttctttaagGAACCAAGCTGATGTCGATGCTCTTATGCTGGAACTGGATGGGACCCCAAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actataatcggtgatggatagttgaatgtaatatttttaccttattttctttaagGAACCAAGCTGATGTCGATGCTCTTATGCTGGAACTGGATGGGACCCCAAACAAGTCGAAACTCGGGGCTAATGCGATATTAGGAGTGTCATTGAGCGTT
tatttttaccttattt CT-rich tract
aatgtaatatttttac TA-rich tract
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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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttgaattgttccgtttgtggtttctgattctgaaccgttgggaaactataatcggtgatggatagttgaatgtaatatttttaccttattttctttaagGAACCAAGCTGATGTCGATGCTCTTATGCTGGAACTGGATGGGACCCCAAACAAGTCGAAACTCGGGGCTAATGCGATATTAGGAGTGTCATTGAGCGTT
- - - - - - - - - - - - ctgattc
- - - - - - - - - - - - - - - - - - - - - gaaacta