Sequence
atgc intronic sequence ATGC exonic sequenceGTTATTCCATTTGATAATAAGGGACAGCTCAAGGAAGCTTTTAATATCAGgtactctttaattctagtgtgcatttgtttccaggcatcagattctttcgtaaataaactgtttaatcctcaatatactcattcctctagaatcactacgatatgatttttctggggatatttaaaactgaatgatgatgtactgagtgtggtgtctaaatttcag
Basic information
species | Arabidopsis thaliana |
transcript | AT4G05420.2 |
intron # | 6 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G05420.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: LOC_Os05g51480.1 (Oryza sativa), 5'ss of exon 7
GTTATTCCATTTGATAATAAGGGACAGCTCAAGGAAGCTTTTAATATCAGgtactctttaattctagtgtgcatttgtttccaggcatcagattctttcgtaaataaactgtttaatcctcaatatactcattcctctag-aatcactacgatatgatttttctggggatatttaaaactgaatgatgatgtactgagtgtggtgtctaaatttcag
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GTTATACCGTTTGATAACAAAGGGCAGCTGAAGGAAGCTTTCAATATCAGgtatcaggatggcaaaacgtataatcgaacatattggtt-gatggaaacatctgtgtagtgacttagtcaggaaaaacatgtgccactagtaatcggcaac------------------------------------------------------------------
upper sequence: AT4G05420.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GRMZM2G402002_T01 (Zea mays), 5'ss of exon 7
GTTATTCCATTTGATAATAAGGGACAGCTCAAGGAAGCTTTTAATATCAGgtac---tctttaa--ttctagtgtgcatttgtttccaggcatcagattctttcgtaaataaactgtttaatcctcaatatactcattcctctagaatcactacgatatgatttttctggggatatttaaaactgaatgatgatgtactgagtgtggtgtctaaatttcag
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GTTATACCATTTGACAACAAAGGGCAGCTGAAGGAAGCTTTCAATATCAGgtatgagtgttaaaactcctaactggtatttatttcctgaaaa-atattcatgcgatcaggaaatgtatg-tggtagtaacaataaatattggagcatgtgt---------------------------------------------------------------------
upper sequence: AT4G05420.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA08G13680.1 (Glycine max), 5'ss of exon 7
GTTATTCCATTTGATAATAAGGGACAGCTCAAGGAAGCTTTTAATATCAGgtactctttaattctagtgtgcatttgtttccaggcatcagattct-ttcgtaaataaactgtt--taatcctcaatatactcattcctctagaatcactacgatatgatttttctggggatatttaaaactgaatgatgatgtactgagtgtggtgtctaaatttcag
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GTTATTCCCTTCGACAATAAAGGACAGCTCAAGGAAGCATTTAATATAAGgtaaccat--attat----tcccttggttttctacaaatggattctatttacaatttgacctttgctaggtatgcataaatgtagtgct----agtaactatgagcctat-----------------------------------------------------------
upper sequence: AT4G05420.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: GLYMA05G30530.1 (Glycine max), 5'ss of exon 7
GTTATTCCATTTGATAATAAGGGACAGCTCAAGGAAGCTTTTAATATCAGgtactctttaattctagtgtgcatttgtttccaggcatcagattctttcgtaaataaactgtt--taatcctcaatatactcattcctctagaatcactacgatatgatttttctggggatatttaaaactgaatgatgatgtactgagtgtggtgtctaaatttcag
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GTTATTCCCTTCGACAATAAAGGACAGCTCAAGGAAGCATTTAATATAAGgtaacc----atattattat-cttggctttctacacatggattctatttagaatttgacctttgctaggtatccataaatgtagtgct----agtaactatgagcctat-----------------------------------------------------------
upper sequence: AT4G05420.1 (Arabidopsis thaliana), 5'ss of exon 7
lower sequence: Vv10s0003g04360.t01 (Vitis vinifera), 5'ss of exon 7
GTTATTCCATTTGATAATAAGGGACAGCTCAAGGAAGCTTTTAATATCAGgtactctttaattctagtgtgcatttgtttccaggcatcagattctttcgtaaataaactgtttaatcctcaatatactcattcctctagaatcactacgatatgatttttctggggatatttaaaactgaatgatgatgtactgagtgtggtgtctaaatttcag
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GTGATTCCGTTTGATAATAAAGGACAGCTGAAGGAGGCGTTTAATATTAGgtatttctttctttcccttttggtcctctaataataaatgactgattctggagatgaatttatccatgatgggggaactaagacac---gaattcttaattta---------------------------------------------------------------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|116483004|gb|EG525596.1|EG525596EST: GTTATTCCATTTGATAATAAGGGACAGCTCAAGGAAGCTTTTAATATCAG GCTTGAGGAATTGCAGGTTCTGGATATCAAGTTTCTGTTTGGATGTGCAAA
genomic: GTTATTCCATTTGATAATAAGGGACAGCTCAAGGAAGCTTTTAATATCAGgtactcttta ... taaatttcagGCTTGAGGAATTGCAGGTTCTGGATATCAAGTTTCTGTTTGGATGTGCAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTATTCCATTTGATAATAAGGGACAGCTCAAGGAAGCTTTTAATATCAGgtactctttaattctagtgtgcatttgtttccaggcatcagattctttcgtaaataaactgtttaatcctcaatatactcattcctctagaatcactacgatatgatttttctggggatatttaaaactgaatgatgatgtactgagtgtggtgtctaaatttcag
- - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - AAGGAA