Sequence
atgc intronic sequence ATGC exonic sequenceATGCTTATGGGAGGAGGTGGCTCATTCTCTGCGGGAGGTCCTGGAAAAGGAATGCACTCGTGGCTTTgtaagtcaaatcttgtatttctttttggcctattctagttttgtttattgaactagttcacggaccatactctcgcactgctaagctatcagtaatagtgatacaagttcttatgtctggttacag
Basic information
species | Arabidopsis thaliana |
transcript | AT1G51980.2 |
intron # | 7 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G51980.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA15G02390.1 (Glycine max), 5'ss of exon 7
ATGCTTATGGGAGGAGGTGGCTCATTCTCTGCGGGAGGTCCTGGAAAAGGAATGCACTCGTGGCTTTgtaagtcaaatcttgtatttctttttggcctattctagttttgtttattgaactagttcacggaccatactctcgcactgctaagctatcagtaatagtgatacaagttcttatgtctggttacag
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ATGCTTATGGGAGGAGGTGGGTCATTCTCAGCCGGAGGGCCTGGGAAAGGGATGCACTCAAGGCTGTgtaagtttgacctatatcttctactttacag---ctgactttggtcaatgatttgat------------cttcttttttgctaggc-atcaatgatt-tgattta----cctttgcc--atta---
upper sequence: AT1G51980.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA13G43000.1 (Glycine max), 5'ss of exon 8
ATGCTTATGGGAGGAGGTGGCTCATTCTCTGCGGGAGGTCCTGGAAAAGGAATGCACTCGTGGCTTTgtaagtcaaatcttgtatttctttttggcctatt-ctagttttgttta----ttgaactagttcacggaccatactctcgcactgctaagctatcagtaatagtgatacaagttcttatgtctggttacag
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ATGCTTATGGGAGGAGGTGGGTCGTTCTCTGCTGGAGGGCCTGGAAAAGGGATGCATTCAAGGCTGTgtaagttttacct-atatcttcttctactttacagctgattttggccaatgtttgatttacctttgccattatatatttgtatttataaacttttcccatt------------------------------
upper sequence: AT1G51980.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA07G01720.1 (Glycine max), 5'ss of exon 7
ATGCTTATGGGAGGAGGTGGCTCATTCTCTGCGGGAGGTCCTGGAAAAGGAATGCACTCGTGGCTTTgtaagtcaaatcttgtatttctttttggcctattctagttttgtttattgaactagttcacgg-accatactctcgcactg-----ctaagctatcag--taata-gtgatacaagttcttatgtc----tggttacag----------------------------------------------------
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ATGCTTATGGGAGGAGGTGGATCATTCTCAGCAGGGGGGCCTGGAAAAGGGATGCACTCAAGGCTATgtaagttttacct-gtactttcttgtccgctgtt-tagtttggtcagctacgtgctttaacattgtcattatcttaaattaaactctccatttatctgtctaatgtgcacttcaccttccttcatcattttagtttcatgcatacccaactctaatattttaacttgttttgcatgtacaactgaatccag
upper sequence: AT1G51980.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA08G21380.1 (Glycine max), 5'ss of exon 7
ATGCTTATGGGAGGAGGTGGCTCATTCTCTGCGGGAGGTCCTGGAAAAGGAATGCACTCGTGGCTTTgtaagtcaaatcttgtatttctttttggcctattctagttttgtttattgaactagttcacgg-accatactctcgcactgctaagctatcagtaatagtgatacaagttcttatgtctggttacag
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ATGCTTATGGGAGGAGGTGGGTCATTCTCAGCAGGGGGGCCTGGAAAAGGGATGCACTCAAGGCTATgtatgttttacct-atactttcttgtctgctgtt-tagtttggacagctatgtgctttaacgttgtcattatctt---caattaaattctccat--ctgaggtgtaa--------------------
upper sequence: AT1G51980.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv09s0002g03200.t01 (Vitis vinifera), 5'ss of exon 7
ATGCTTATGGGAGGAGGTGGCTCATTCTCTGCGGGAGGTCCTGGAAAAGGAATGCACTCGTGGCTTTgtaagtc--aaatcttgt-----atttctttttggcctattctagttttgtttattgaactagttcac-------ggaccatact----ctcgcactgctaagctat--cagtaatagtgatacaagttcttatgtctgg-ttacag---------------------------------------
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ATGCTTATGGGAGGAGGTGGCTCATTCTCTGCGGGGGGCCCTGGAAAAGGAATGCACTCACGACTATgtaagttttacatatggctactggttttcttgtagcttaccttgatcatttgggttatggttatttattattgttggactttatagctgcttggattcctgtgttgttgcattaatgttgac-tgagtatatatttctaaatttctgctaagtttaactcgtttgtttaacccattttgaacacag
upper sequence: AT1G51980.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv10s0003g03230.t01 (Vitis vinifera), 5'ss of exon 6
ATGCTTATGGGAGGAGGTGGCTCATTCTCTGCGGGAGGTCCTGGAAAAGGAATGCACTCGTGGCTTTgtaagtc--aaatcttgt-----atttctttttggcctattctagt---tttgtttattg--aacta--gttcacggaccatactctcgcactg-----ctaagctat--cagtaatagtgatacaagttcttatgtctgg-ttacag---------------------------------------
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ATACTTATGGGAGGAGGTGGCTCATTCTCTACGGGGGGCCCTGGAAAAGGAATGCACTCACGACTATgtaagttttacatatggctactggttttcttgtagcttaccttgatcatttgggttattgttatttattattgttggactttatagctgcttggatttcctgtgttgttgcattaatgttgat-tgagtatatatttctaaatttctgctaagtttaactcgcttgtttcacccattttgaacacag
upper sequence: AT1G51980.2 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: PP1S74_253V6.1 (Physcomitrella patens), 5'ss of exon 2
-------------------------ATGCTTATGGGAGGAGGTGGCTCATTCTCTGCGGGAGGTCCTGGAAAAGGAATGCACTCGTGGCTTTgta----agtcaaatcttgtatttctttttggcctattctagttttgtttattgaactagttcacggaccatactctcgcactgctaagctatcagtaatagtgatacaagttcttatgtctggttacag
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TTCATATGCAGTGACTGTCCTACAGCAGCTTCTTGGAGGAGGAGGGTCTTTCTCTGCGGGTGGTCCTGGAAAGGGAATGTATTCTCGATTGTACACTGGGgtaagatattatccggagtatcttatcgtgaaaactct-ttctttaagatagtttctggtcattgatttcgtagaagtctgtttatgtttcgggtaat-caa--------------------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|47831013|gb|CK120697.1|CK120697EST: TGGCTCATTCTCTGCGGGAGGTCCTGGAAAAGGAATGCACTCGTGGCTTT ATCGCCGTGTTCTAAACGAATATCAGGAGGTTCAGTCATGCACTGCATTCA
genomic: TGGCTCATTCTCTGCGGGAGGTCCTGGAAAAGGAATGCACTCGTGGCTTTgtaagtcaaa ... ctggttacagATCGCCGTGTTCTAAACGAATATCAGGAGGTTCAGTCATGCACTGCATTCA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ATGCTTATGGGAGGAGGTGGCTCATTCTCTGCGGGAGGTCCTGGAAAAGGAATGCACTCGTGGCTTTgtaagtcaaatcttgtatttctttttggcctattctagttttgtttattgaactagttcacggaccatactctcgcactgctaagctatcagtaatagtgatacaagttcttatgtctggttacag
- - - - - - - - - - - - - - - - - - - - - - - AAGGAA