Sequence
atgc intronic sequence ATGC exonic sequencegtgagttctttcttcctgcgttttcaagctggtcaaaatatttggctggaatacttttgatgactggttatatatatgctaagGTCATGGAGAATTCAGCTGAGAAGATCAGACTGGCTGGGAATCCAAATGTTATGGTTTGTGAAAGAGGAACCATGTTCGGATACA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G79500.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G79500.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA18G48370.1 (Glycine max), 3'ss of exon 6
---------------------------------------gtgagttctttctt--cctgcgttttcaagctggtcaaaatatttggctggaatacttttgatgactggttatatatatg-cta-agGTCATGGAGAATTCAGCTGAGAAGATCAGACTGGCTGGGAATCCAAATGTTATGGTTTGTGAAAGAGGAACCATGTTCGGATACA-
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ttagtatactatccaactttatgagttacaatttcaatagttagcaatgacttaacttaagcctcggaattagt--gtctcctgatttttaccattattcatgtttcatagttttcatgtctataggTGATGACAAATTCAGCTGAAAAGGTTCGGTTAGCTGGAAATCCTAATGTGATGGTTTGTGAGAGAGGAACAATGTTTGGATACAG
upper sequence: AT1G79500.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: GLYMA09G38010.1 (Glycine max), 3'ss of exon 7
------------------------------------------------gtgagttctttctt--cctgcgttttcaagctggtcaaaatatttggctggaatacttttgatgactggttatatatatgctaagGTCATGGAGAATTCAGCTGAGAAGATCAGACTGGCTGGGAATCCAAATGTTATGGTTTGTGAAAGAGGAACCATGTTCGGATACA
|| || | | | | | | | | | ||| | | || | || ||| || | | || | ||| |||| ||| ||||||||||| ||| || | | ||||| ||||| ||||| ||||||||||| |||||||| ||||| |||||||
gttagtatattatccaactttatgagttaaaaatttacaatttcaatagttagcaatgacataacttaagcctcggaattagtctgatttttaccattatttatgtttcatagttt-tcatgtctat----agGTGATGACAAATTCAGCTGAAAAGGTCCGGTTAGCTGGAAATCCTAATGTGATGGTTTGTGAGAGAGGAACAATGTTTGGATACA
upper sequence: AT1G79500.2 (Arabidopsis thaliana), 3'ss of exon 7
lower sequence: Vv19s0085g00720.t01 (Vitis vinifera), 3'ss of exon 6
----gtgagtt---ctttcttcctgcgttttcaagctggtcaaaatatttg--------gctggaatacttttgatgactggttatatatatgctaagGTCATGGAGAATTCAGCTGAGAAGATCAGACTGGCTGGGAATCCAAATGTTATGGTTTGTGAAAGAGGAACCATGTTCGGATACA
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gtaagtgaatctggcatttttatctcggcagcaagccttcaacaacctttattctatctgctacagtcgctctatctgatagtcatgtacatttgcagGTCATGGTAAATTCTGCTGAAAAGATCAGATTGGCTGGGAATGAAAATGTGATGGTTTGTGAGAGGGGAACTATGTTTGGCTATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctggtcaaaatatttggctggaatacttttgatgactggttatatatatgctaagGTCATGGAGAATTCAGCTGAGAAGATCAGACTGGCTGGGAATCCAAATGTTATGGTTTGTGAAAGAGGAACCATGTTCGGATACA
ttttgat putative branch site (score: 4)
ttatatatatgctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttctttcttcctgcgttttcaagctggtcaaaatatttggctggaatacttttgatgactggttatatatatgctaagGTCATGGAGAATTCAGCTGAGAAGATCAGACTGGCTGGGAATCCAAATGTTATGGTTTGTGAAAGAGGAACCATGTTCGGATACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA