Sequence
atgc intronic sequence ATGC exonic sequenceCGCCACGAGCTCAAAGGCTGCATCAACGACGCCAAGTGCATGCGTCACCTTCTCATCAACAAATTCAAATTCTCCCCAGATTCAATTCTCATGCTTACCGgtacagagtatttctatcttttcaaatgcctatgtttgctactatactactattccttggattttgaatacaattttccttggcctcttcaatctgataa...
Basic information
species | Arabidopsis thaliana |
transcript | AT1G02170.1 |
intron # | 1 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G02170.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G035928_T01 (Zea mays), 5'ss of exon 1
CGCCACGAGCTCAAAGGCTGCATCAACGACGCCAAGTGCATGCGTCACCTTCTCATCAACAAATTCAAATTCTCCCCAGATTCAATTCTCATGCTTACCGgt--acaga-gtatttctatcttttcaaatgcctatgtttgctactatactacta-ttccttggatt--ttgaatacaattttccttggcctcttcaatctgataa
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CGGCATGAGCTGAAGGGCTGCATCAACGACGCCAAGTGCATGCGCCACCTGCTCATGACGCGCTTCAACTTCCCCGACGACTCCATCATCATGCTCAACGgtcggtagacgcgcaccccctgttctctattgctgtatctaccgccccctagcgagttgatcgaattggttggccacaatttcgcttcaactttttttgc------
upper sequence: AT1G02170.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GRMZM2G155422_T01 (Zea mays), 5'ss of exon 1
CGCCACGAGCTCAAAGGCTGCATCAACGACGCCAAGTGCATGCGTCACCTTCTCATCAACAAATTCAAATTCTCCCCAGATTCAATTCTCATGCTTACCGgtacagagtatttctatcttttcaaatgcctatgtttgctactatactacta-----ttccttggatt--ttgaatacaattttccttggcctcttcaatctgataa
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CGGTATGAGCTGAAGGGCTGCATCAACGACGTCAAGTGCATGCGCCACCTCCTCATGACGCGCTTCAACTTCCCCGACGACTCCATCATTATGCTCAACGgtccgtag-atccgcaccctctgttctgcattgctgctctaccg-actcctaggaagtcgatcgaattggttggccgcaatttcgggtcaactctttg-cctg----
upper sequence: AT1G02170.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA08G45470.1 (Glycine max), 5'ss of exon 1
CGCCACGAGCTCAAAGGCTGCATCAACGACGCCAAGTGCATGCGTCACCTTCTCATCAACAAATTCAAATTCTCCCCAGATTCAATTCTCATGCTTACCGgtacagagtatttctatcttttcaaatgcctatgtttgctactatactactattccttggattttgaat--acaattttccttggcctcttcaatctgataa-
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CGACACGAGCTCAAGGGATGCATCAACGACGCCAAGTGCATGAAGTACCTCCTCATCAACAAGTTCAGCTTTCCAGAATCTTCCATCATCATGCTCACCGgtac---gtacgtccccctcgtctttctttcgcttcgatcgcttagtttttgtgttctagattccacatcaactaatgatattgatattttttttcctccgga
upper sequence: AT1G02170.1 (Arabidopsis thaliana), 5'ss of exon 1
lower sequence: GLYMA01G10880.2 (Glycine max), 5'ss of exon 1
CGCCACGAGCTCAAAGGCTGCATCAACGACGCCAAGTGCATGCGTCACCTTCTCATCAACAAATTCAAATTCTCCCCAGATTCAATTCTCATGCTTACCGgtacaga----gtatttctatcttttcaaatgcctatgtttgctactatactactattccttggattttgaatacaattttccttggcctcttcaatctgataa
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CGCCACGAGCTCAAGGGTTGCATCAACGACGCCAAATGCATGAAGTACCTCCTCATCAACAAGTTCAGCTTTCCAGAATCTTCCATCATCATGCTCACGGgtacgtccctcgtctttctttcgcttcgaacgc-tgtgttggagatcccac-attaaagtacacaagtggggaataaccctcaccttactttacgagcctat--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|116481363|gb|EG523955.1|EG523955EST: TCTCATCAACAAATTCAAATTCTCCCCAGATTCAATTCTCATGCTTACCG AGGAAGAAACTGATCCATATCGTATCCCGACCAAGCAAAACATGAGGATGG
genomic: TCTCATCAACAAATTCAAATTCTCCCCAGATTCAATTCTCATGCTTACCGgtacagagta ... tcattctcagAGGAAGAAACTGATCCATATCGTATCCCGACCAAGCAAAACATGAGGATGG
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
CGCCACGAGCTCAAAGGCTGCATCAACGACGCCAAGTGCATGCGTCACCTTCTCATCAACAAATTCAAATTCTCCCCAGATTCAATTCTCATGCTTACCGgtacagagtatttctatcttttcaaatgcctatgtttgctactatactactattccttggattttgaatacaattttccttggcctcttcaatctgataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gaatacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cctcttca