Sequence
atgc intronic sequence ATGC exonic sequence...gtcctgcatgttatatgacgagtctcaatcaaagtagacttgcatgtttcacttcaaaatcatattcaaattttgagtcttgttttcttgtatgttgcagGGTGATGAGCTGAAGGTGAAAGTGAATAAATTAACTTCCATAAAGACTCAGCTTCCATACTCGTATTACTCCCTTCCTTTTTGTCGCCCTAGCAAGATTG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G10840.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G10840.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G458845_T01 (Zea mays), 3'ss of exon 1
gtcctgcatgttatatgacgagtctcaatcaaagtagacttgcatgtttcacttcaaaatcatattcaaattttgagtcttgttttc---ttgtatgttgcagGGTGATGAGCTGAAGGTGAAAGTGAATAAATTAACTTCCATAAAGACTCAGCTTCCATACTCGTATTACTCCCTTCCTTTTTGTCGCCCTAGCAAGATTG
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-ttct-tatgatgttttgcatttccttcttaacttgtagccttttattt-actgaaatatgttttgcatgttctctaactggttcatagataattttctgcagAAAGATCCACTTTTGGTGAAGGTGAATAAGCTGACATCAACAAAGACACAACTTCCCTACTCGTATTACTCTCTTCCTTTTTGCAAGCCAAACATGATAG
upper sequence: AT5G10840.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA06G06460.1 (Glycine max), 3'ss of exon 1
gtcctgcatgttatatgacgagtctcaatcaaagtagacttgcatgtttcacttcaaaatcatattcaaattttgagtcttgttttcttgtatgttgcagGGTGATGAGCTGAAGGTGAAAGTGAATAAATTAACTTCCATAAAGACTCAGCTTCCATACTCGTATTACTCCCTTCCTTTTTGTCGCCCTAGCAAGATTG-
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gtcctgcttgtaagctggacaaaatgaggaatattctgaattcattatggatctacttcgtaagtccttaactgactttttacttatttctttgctgcagGGAGATCAATTGCAAGTGAAAGTAAATAAATTAACATCAACAAAGACCCAGCTTCCATATTCATATTATTCACTTCCCTACTGT-GCCCCATCAAAAATAC
upper sequence: AT5G10840.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv04s0008g06640.t01 (Vitis vinifera), 3'ss of exon 1
-gtcctgcatgttatatgacgagtctcaatcaaagt--agacttgcatgtttcacttcaaaatcatattcaaattttgagtcttgttttcttgtatgttgcagGGTGATGAGCTGAAGGTGAAAGTGAATAAATTAACTTCCATAAAGACTCAGCTTCCATACTCGTATTACTCCCTTCCTTTTTGTCGCCCTAGCAAGATTG
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tctccctcttatgatgctctatgttcttctctgtgtcaaaaatattattgagatcatcaaaggttaatggtgaattgggattgtatgttttt---tgatctagGGAGATCCATTGAAGGTGAAAGTGAACAAATTAACCTCTACAAAGACTCAACTTCCTTACACGTACTATTCTCTGCCTTATTGCCGCCCAGGAAAAATTGMapped 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|124718265|gb|EH809667.1|EH809667EST: TCATTCTATCTCCCAGGTGTTGCTCCTCAGGATTTCGAGAAG GGTGATGAGCTGAAGGTGAAAGTGAATAAATTAACTTCCATAAAGACTCAG
genomic: TCATTCTATCTCCCAGGTGTTGCTCCTCAGGATTTCGAGAAGgtaaaaacgt ... tatgttgcagGGTGATGAGCTGAAGGTGAAAGTGAATAAATTAACTTCCATAAAGACTCAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttcacttcaaaatcatattcaaattttgagtcttgttttcttgtatgttgcagGGTGATGAGCTGAAGGTGAAAGTGAATAAATTAACTTCCATAAAGACTCAGCTTCCATACTCGTATTACTCCCTTCCTTTTTGTCGCCCTAGCAAGATTG
tcttgttttcttgt CT-rich tract
ttcaaaatcatattca 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 |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcctgcatgttatatgacgagtctcaatcaaagtagacttgcatgtttcacttcaaaatcatattcaaattttgagtcttgttttcttgtatgttgcagGGTGATGAGCTGAAGGTGAAAGTGAATAAATTAACTTCCATAAAGACTCAGCTTCCATACTCGTATTACTCCCTTCCTTTTTGTCGCCCTAGCAAGATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - aatcaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - caaaatc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -attcaaa