Sequence
atgc intronic sequence ATGC exonic sequencegtatattaatcgaatcagtcaacacataactaaaaagtgtactaataaaaaacttggttcctaaaatgtagATAAGGAACAACAAGCTGATATATCAAGACAAGCCAAGACTTAAAACCGCACTTGAAATGCTTAGAACGAGCATGGACCTTGAAGACACTCTCCACGAGA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G62860.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G62860.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: LOC_Os01g21310.1 (Oryza sativa), 3'ss of exon 2
----------------------------gtatattaatcgaatcagtcaacacataactaaaaagtgtactaataaaaaacttggttcctaaaatgta---gATAAGGAACAACAAGCTGATATATCAAGACAAGCCAAGACTTAAAACCGCACTTGAAATGCTTAGAACGAGCATGGACCTTGAAGACACTCTCCACGAGA
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atttctgaacatttgatacagtggtccaacagatttgttg--tcgttgagcatataaactcagtttggtgtgttctttgccatgccatgccaaatttaacagATCAGGAAGAACAAGCTGATATACCAGGACAAGCCGAGGCTCAAGACCGCACTTGAGATGCTCAGGACCAGCATGTACGTAGAGGACAGCTTGTCCAAG-
upper sequence: AT3G62860.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA03G37290.1 (Glycine max), 3'ss of exon 5
--------------------------------------gtatattaatcgaatcagtcaacacataactaaaaagtgtactaataaaaaacttggttcctaa---aatgtagATAAGGAACAACAAGCTGATATATCAAGACAAGCCAAGACTTAAAACCGCACTTGAAATGCTTAGAACGAGCATGGACCTTGAAGACACTCTCCACGAGA
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gtgaggtttatattgtaaattgtaattgagatgcttgcttaaatgacttaaagtcttgttgatttagtgctagggttaactaatgtgcctcttcctatgagggtcattgcagATAAGGAAAAACAAGTTGATATACCAGGACAAGCCAAGGCTAAAAACAGCATTAGAAATGTTGAGAATCAGCATGAGCCTTGAAGACAGCTTATATAAG-
upper sequence: AT3G62860.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv07s0005g00510.t01 (Vitis vinifera), 3'ss of exon 6
------------------------------------gtatattaatcgaatcagtcaacacataactaaaaagtgtactaataaaaaacttggttcctaaaatgtagATAAGGAACAACAAGCTGATATATCAAGACAAGCCAAGACTTAAAACCGCACTTGAAATGCTTAGAACGAGCATGGACCTTGAAGACACTCTCCACGAGA
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gtgatgatatatatctgttttccaacttctagtcccatatatttctctcat--gtaaacgtgggattctgaacagcattgctttc---tgtcgttaataatgcgcagATAAGAAACAATAAGTTGATATACCAAGACAAGCCGAGGCTGAAGACAGCGCTGGAAATGCTCAGAACCAGCATGAGCCTCGAGGACTCATTACATGAG-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|86078644|gb|DR374401.1|DR374401EST: CAAAAGATGTTATCGATGCTGCCTTCAAGGATCCGGTCAAGCGCGAAGAG ATAAGGAACAACAAGCTGATATATCAAGACAAGCCAAGACTTAAAACCGCA
genomic: CAAAAGATGTTATCGATGCTGCCTTCAAGGATCCGGTCAAGCGCGAAGAGgtatattaat ... taaaatgtagATAAGGAACAACAAGCTGATATATCAAGACAAGCCAAGACTTAAAACCGCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtcaacacataactaaaaagtgtactaataaaaaacttggttcctaaaatgtagATAAGGAACAACAAGCTGATATATCAAGACAAGCCAAGACTTAAAACCGCACTTGAAATGCTTAGAACGAGCATGGACCTTGAAGACACTCTCCACGAGA
ttcct CT-rich tract
ataactaaaaagtgta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatattaatcgaatcagtcaacacataactaaaaagtgtactaataaaaaacttggttcctaaaatgtagATAAGGAACAACAAGCTGATATATCAAGACAAGCCAAGACTTAAAACCGCACTTGAAATGCTTAGAACGAGCATGGACCTTGAAGACACTCTCCACGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA