Sequence
atgc intronic sequence ATGC exonic sequencegtaattgtttcttcaagtccacaaattgtgaaaacacatcctctgctaacatagtgtgagaacctttcaactgttgcagGGAGTATACACGTTTGATATGAAGGAATCAGCCATTAGAGTAGATACATTTTGTGTTCATGGCAGCCCTGATGGATATATAACAGGAATCAGAGGGAAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G47860.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G47860.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G45880.1 (Glycine max), 3'ss of exon 3
---------------------gtaattgtttcttcaagtccacaaattgtgaaaacacatcctctgctaacatagtgtgagaacctttcaactgttgcagGGAGTATACACGTTTGATATGAAGGAATCAGCCATTAGAGTAGATACATTTTGTGTTCATGGCAGCCCTGATGGATATATAACAGGAATCAGAGGGAAAG
| || | | | | | ||| | | ||| || | | | || | | | | || ||||| ||||| || ||||||| | | | | || | || ||| ||||| |||||||||||||| ||||| |||||| |||||| ||||| ||||| | |
tataacagttagtacatcttggagataagatttatcatttaccttatttggcatggacaagcttcttgatattgatttgggtatactaatgatatttcagGGTGTATATACATTTGATAGGGAAGCACCATCTATCCAAGTTGATACCTTTTGTGTTCATGGAGGCCCTAATGGATTTATAACTGGAATTAGAGGAAGGG
upper sequence: AT3G47860.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv19s0177g00320.t01 (Vitis vinifera), 3'ss of exon 3
------------------------gtaattgtttcttcaagtccacaaattgtgaaaacacatcctctgctaacatagtgtgagaacctttcaactgttgcagGGAGTATACACGTTTGATATGAAGGAATCAGCCATTAGAGTAGATACATTTTGTGTTCATGGCAGCCCTGATGGATATATAACAGGAATCAGAGGGAAAG
||| |||| || ||| | | | | || | || || ||| | | |||| |||||||| ||||| || ||||| ||| | | | || || ||| ||||| |||||||||||||| |||||||||||||||| || || || | || || |
atgcaaaaatgaatttggtttaatataag-gtttttttcggtcaaaactgtatactctggaatacctgactgccaaagtatcccgttttatcaa--attgcagGGTGTATATACATTTGACATGGAATCACCTGCTATCCAAGTTGATACTTTTTGTGTTCATGGGGGCCCTGATGGATATATTACTGGGATTCGGGGAAAGGMapped 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|125047725|gb|EL119994.1|EL119994EST: TTAAGCGTGGATTTGCAGGTCAAGGCCAAGAAGACTGTCATTGCACTCAG GGAGTATATACGTTTGA
genomic: TTAAGCGTGGATTTGCAGGTCAAGGCCAAGAAGACTGTCATTGCACTCAGgtaattgttt ... actgttgcagGGAGTATACACGTTTGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgtgaaaacacatcctctgctaacatagtgtgagaacctttcaactgttgcagGGAGTATACACGTTTGATATGAAGGAATCAGCCATTAGAGTAGATACATTTTGTGTTCATGGCAGCCCTGATGGATATATAACAGGAATCAGAGGGAAAG
tgctaac putative branch site (score: 1)
taacata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattgtttcttcaagtccacaaattgtgaaaacacatcctctgctaacatagtgtgagaacctttcaactgttgcagGGAGTATACACGTTTGATATGAAGGAATCAGCCATTAGAGTAGATACATTTTGTGTTCATGGCAGCCCTGATGGATATATAACAGGAATCAGAGGGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA