Sequence
atgc intronic sequence ATGC exonic sequence...gtttgttaattcaataattgaaggaacatacatgttaaggatatgtattacatttgcggctcttgatacaccatttgatttagtgctcgtttacacttagGGGTTCGTTACTTGGAGAAAGCTGTTTTCAATCTTGATTATGGACAGCTGAAGCTTGTATTTCACGCTCTTGAGGAGCGTAAACAGCTCATTGAGAATGC
Basic information
species | Arabidopsis thaliana |
transcript | AT3G10370.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G10370.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: LOC_Os04g14790.1 (Oryza sativa), 3'ss of exon 1
----gtttgttaattcaataattgaaggaacatacatgttaaggatatgtattacatttgcggctcttgatacaccatttg-atttagtgctcgtttacacttagGGGTTCGTTACTTGGAGAAAGCTGTTTTCAATCTTGATTATGGACAGCTGAAGCTTGTATTTCACGCTCTTGAGGAGCGTAAACAGCTCATTGAGAATGC
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tccagtttcagaaagatatagatttgtacatttttaggtggttaatatttgata-atgtaaattccactattcctcgcttatattgaatacttttttaca----gGTGTGCGCTATTTGGAGAAGGCAGTATTCAATCTTGATTATGGGCAGCTGAAACTCGTTTTTCATGCTTTGAAAGAAAGAAAGCAGGTTATTGAAAATGC
upper sequence: AT3G10370.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GRMZM2G446108_T03 (Zea mays), 3'ss of exon 1
gtttgttaattcaataattgaaggaacatacatgt---taaggatatgtattacatttgcggctcttgatacaccatttgatttagtgctcgtttacacttagGGGTTCGTTACTTGGAGAAAGCTGTTTTCAATCTTGATTATGGACAGCTGAAGCTTGTATTTCACGCTCTTGAGGAGCGTAAACAGCTCATTGAGAATGC
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-tacaaacaagatatacctgcaccagtgtttttgtgccttttgggattgaaaaaactta-atttagcattgtcccttattatattgcattcaatt-tgtacagGCGTGCGCTACTTGGAGAAGGCAGTGTTCAATCTTGATTATGGGCAGCTGAAACTTGTTTTTCATGCACTTAAGGAACGCAAACAAGTCATCGAGAATGC
upper sequence: AT3G10370.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA02G28000.1 (Glycine max), 3'ss of exon 1
----gtttgttaattcaataattgaaggaacatacatgttaaggatatgtattacatttgcggctcttgatacaccatttgatttagtgctcgtttacac--ttagGGGTTCGTTACTTGGAGAAAGCTGTTTTCAATCTTGATTATGGACAGCTGAAGCTTGTATTTCACGCTCTTGAGGAGCGTAAACAGCTCATTGAGAATGC
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atactgttgtcattttatgtcttgcacacttgtttttgtttgttttataagttgtaagtac--ttgttgatctaacatct----tagcattcgtgtaaactcttagGTGTTCGTTACCTGGAGAAAGCTGTCTTTAAACTTGACTATGGCCAACTGAAGTTAGTATTCCATGCACTTGAGGAGCGCAAACAGCTTATTGACAATGC
upper sequence: AT3G10370.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv13s0019g04730.t01 (Vitis vinifera), 3'ss of exon 1
gtttgttaattcaataattgaaggaacatacatgttaaggatatgtattacatttgcggctcttgatacaccatttgatttagtgctcgtttacactta--------gGGGTTCGTTACTTGGAGAAAGCTGTTTTCAATCTTGATTATGGACAGCTGAAGCTTGTATTTCACGCTCTTGAGGAGCGTAAACAGCTCATTGAGAATGC
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------tggtt--atattttgtgccagtttttttctaggtttcctcatgaaattttttgtttcattagtttcttttcctttagttctcatgtaaatttattttgttagGGGTCCGGTACTTGGAGAAAGCTGTTTTTAATCTTGACTATGGACAACTAAAGCTGGTTTTCCATGCACTTGAGGAGCGCAAGCAGGTTATTGAGAATGCMapped 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|116483422|gb|EG526014.1|EG526014EST: GGATTTCTCCTCTGGGACTTCTTCGCGATCTACAAAGCTGATTCATGGAG GGGTTCGTTACTTGGAGAAAGCTGTTTTCAATCTTGATTATGGACAGCTGA
genomic: GGATTTCTCCTCTGGGACTTCTTCGCGATCTACAAAGCTGATTCATGGAGgtacttttaa ... ttacacttagGGGTTCGTTACTTGGAGAAAGCTGTTTTCAATCTTGATTATGGACAGCTGA
EST:
gi|116483427|gb|EG526019.1|EG526019EST: GGATTTCTCCTCTGGGACTTCTTCGCGATCTACAAAGCTGATTCATGGAG GGGTTCGTTACTTGGAGAAAGCTGTTTTCAATCTTGATTATGGACAGCTGA
genomic: GGATTTCTCCTCTGGGACTTCTTCGCGATCTACAAAGCTGATTCATGGAGgtacttttaa ... ttacacttagGGGTTCGTTACTTGGAGAAAGCTGTTTTCAATCTTGATTATGGACAGCTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattacatttgcggctcttgatacaccatttgatttagtgctcgtttacacttagGGGTTCGTTACTTGGAGAAAGCTGTTTTCAATCTTGATTATGGACAGCTGAAGCTTGTATTTCACGCTCTTGAGGAGCGTAAACAGCTCATTGAGAATGC
ctcgttt CT-rich tract
atttgattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgttaattcaataattgaaggaacatacatgttaaggatatgtattacatttgcggctcttgatacaccatttgatttagtgctcgtttacacttagGGGTTCGTTACTTGGAGAAAGCTGTTTTCAATCTTGATTATGGACAGCTGAAGCTTGTATTTCACGCTCTTGAGGAGCGTAAACAGCTCATTGAGAATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - -aattcaa
- - - - - - - - - - - - -acataca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atacacc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gatttag