Sequence
atgc intronic sequence ATGC exonic sequenceGTTGCTGTATTTGCTGGTGGCGTTGATACCACTGCAACAGAGACCAAAGGAACTGTCCTCATTCATAGTGCTGAGCAGgttagatttgttactgtctttctaaaatttcaaaattacgattatggcttcctcaaagatggttgtgtatttgtaatcgttattgtgacaaatttctctttttatattggatttgtag
Basic information
species | Arabidopsis thaliana |
transcript | AT3G03960.1 |
intron # | 5 |
splice site | 5' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G03960.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA16G26920.1 (Glycine max), 5'ss of exon 5
GTTGCTGTATTTGCTGGTGGCGTTGATACCACTGCAACAGAGACCAAAGGAACTGTCCTCATTCATAGTGCTGAGCAGgttagatttgttactgtctttctaaaatttcaaaattacgattatggcttcctcaaagatggttgtgtatttgtaatcgttattgtgacaaatttctctttttatattggatttgtag
|||||||| ||||||||||| |||||||| ||||||| ||||| ||||||||||||||||| |||| ||||||||||| || | | || ||| | ||| || | | |||| || |||| | | | || | || |||| || || || | | ||| | || | ||
GTTGCTGTGTTTGCTGGTGGTGTTGATACATCTGCAACTGAGACTAAAGGAACTGTCCTCATACATACAGCTGAGCAGgt---atatcaaaatgactt---gagttttgaatttgattattactgcctccttactgtt--ttatatagttgttatatttttt---------tattgtttgagtggtgaaagccta-
upper sequence: AT3G03960.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: GLYMA02G07910.1 (Glycine max), 5'ss of exon 5
GTTGCTGTATTTGCTGGTGGCGTTGATACCACTGCAACAGAGACCAAAGGAACTGTCCTCATTCATAGTGCTGAGCAGgttagatttgttactgtctttctaaaatttcaaaattacgattatggcttcctcaaagatggttgtgtatttgtaatcgttattgtgacaaatttctctttttatattggatttgtag
|||||||| |||||| |||| |||||||| ||||||| ||||| ||||||||||||||||| |||| ||||||||||| | | | ||||| | ||||| | | | || ||| | | ||| | || ||| ||| || ||
GTTGCTGTGTTTGCTAGTGGTGTTGATACATCTGCAACTGAGACTAAAGGAACTGTCCTCATACATACAGCTGAGCAGgtatatcaaaatgacaagagttttgaatttgattattacagtctccttactgttttatatagttatattttttttattgtttgagtggtgaagcctattt------------------
upper sequence: AT3G03960.1 (Arabidopsis thaliana), 5'ss of exon 5
lower sequence: Vv08s0007g07460.t01 (Vitis vinifera), 5'ss of exon 5
GTTGCTGTATTTGCTGGTGGCGTTGATACCACTGCAACAGAGACCAAAGGAACTGTCCTCATTCATAGTGCTGAGCAGgttagatttgttactgtctttctaaaatttcaaaattacgattatggcttcctcaaagatggttgtgtatttgtaatcgttattgtgacaaatttctctttttatattggatttgtag
|||||||| ||||| |||| ||||||||| |||||||||| || |||||||||||||| |||||||||||||||||||| | ||||| | || | | | ||| ||| ||| | ||| | | ||| ||| | || | || || || | | || |
GTTGCTGTGTTTGCCAGTGGTGTTGATACCTCTGCAACAGAAACAAAAGGAACTGTCCTAATTCATAGTGCTGAGCAGgt-atatttggaggaagttctccatggaattactattgtatctata-tttcacctaagttcatcatgtctttctgttctcttttac------ttcctgtgtccatgct----------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|47831127|gb|CK120811.1|CK120811EST: AAGGAACTGTCCTCATTCATAGTGCTGAGCAG CTAGAGAACTATGCAAAGACAGAGGAAGCTAAAGTTGAGGAGTTGATTAAA
genomic: AAGGAACTGTCCTCATTCATAGTGCTGAGCAGgttagatttg ... ggatttgtagCTAGAGAACTATGCAAAGACAGAGGAAGCTAAAGTTGAGGAGTTGATTAAA
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
GTTGCTGTATTTGCTGGTGGCGTTGATACCACTGCAACAGAGACCAAAGGAACTGTCCTCATTCATAGTGCTGAGCAGgttagatttgttactgtctttctaaaatttcaaaattacgattatggcttcctcaaagatggttgtgtatttgtaatcgttattgtgacaaatttctctttttatattggatttgtag
- - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG