Sequence
atgc intronic sequence ATGC exonic sequence...tatatagaaaatttattgcaggcggttttaccttgtatgtgacgatgcattccttcatctttgagatatcatacttaaagtgtatgaccctctttcacagGTGCGAGATGAAATTGAACATCTGTTAGATGACAACGAAGATATGGCACAACTATATTTGACGAGGAAGTGGTTACAGAATCAACAATTTGAGGAGGCTC
Basic information
species | Glycine max |
transcript | GLYMA05G30180.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA05G30180.1 (Glycine max), 3'ss of exon 2
lower sequence: AT3G58970.1 (Arabidopsis thaliana), 3'ss of exon 2
tatatagaaaatttattgcaggcggttttaccttgtatgtgacgatgcattccttcatctttgagatatcatacttaaagtgtatgaccctctttcacagGTGCGAGATGAAATTGAACATCTGTTAGATGACAACGAAGATATGGCACAACTATATTTGACGAGGAAGTGGTTACAGAATCAACAATTTGAGGAGGCTC
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---gtagaggcttaat--aagttaccatttcccaggatactataatg-------ttgtgtggtggatggaaacattaaactgt-----tgtgttattcagGTGAGAGATGAACTCGAGCATTTGTTAGATGACAACGAAGACATGGCTGACTTATACTTAACAAGGAAATGGATCCAGAACCAGCAAACCGAGGCAATAC
upper sequence: GLYMA05G30180.1 (Glycine max), 3'ss of exon 2
lower sequence: AT4G28580.1 (Arabidopsis thaliana), 3'ss of exon 2
tatatagaaaatttattgcaggcggtt-ttaccttgtatg-tgacgatgcattccttcatctttgagatatcatacttaaagtgtatgaccctctttcacagGTGCGAGATGAAATTGAACATCTGTTAGATGACAACGAAGATATGGCACAACTATATTTGACGAGGAAGTGGTTACAGAATCAACAATTTGAGGAGGCTC
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-----------------gtaaaaggttattaccttttccaatgatactataatgttgtgtgttggacgga---aacataaaagctatagtacattatt-cagGTGAGAGATGAAATCGAACATTTCTTAGATGACAAGGAAGACATGGAAGACTTATACTTAACGAGGAAATGGATTCAAAACCAACAAACCGAGGCAGCATMapped 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|51338037|gb|CO981903.1|CO981903EST: TGAGGAGTTTGAAGAGTAATCTTACGCGGTTGCTGGCAAGAGTGCAGAAG GTGCGAGATGAAATTGAACATCTGTTAGATGACAACGAAGATATGGCACAA
genomic: TGAGGAGTTTGAAGAGTAATCTTACGCGGTTGCTGGCAAGAGTGCAGAAGgtatgttttt ... tctttcacagGTGCGAGATGAAATTGAACATCTGTTAGATGACAACGAAGATATGGCACAA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgcattccttcatctttgagatatcatacttaaagtgtatgaccctctttcacagGTGCGAGATGAAATTGAACATCTGTTAGATGACAACGAAGATATGGCACAACTATATTTGACGAGGAAGTGGTTACAGAATCAACAATTTGAGGAGGCTC
ccctctttcac CT-rich tract
atatcatacttaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatatagaaaatttattgcaggcggttttaccttgtatgtgacgatgcattccttcatctttgagatatcatacttaaagtgtatgaccctctttcacagGTGCGAGATGAAATTGAACATCTGTTAGATGACAACGAAGATATGGCACAACTATATTTGACGAGGAAGTGGTTACAGAATCAACAATTTGAGGAGGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - tgcaggc
- - - - - - - - - - - - - - - - -tgtatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atgaccc