Sequence
atgc intronic sequence ATGC exonic sequence...gtgtcatttgtggagaaatacaagatggcattttcatgtgttttcactgatattcaaatggatagacaatttatactatattgattctttaaatatgcagTGCTTGCTGAATGGAAGCCCCCAGTATATGATAATAGACGTGGTATAGTTCTTGTAACAGCCACAACGCGCCGTAATTCACCTAAT
Basic information
species | Glycine max |
transcript | GLYMA19G42530.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G42530.1 (Glycine max), 3'ss of exon 12
lower sequence: AT3G05190.1 (Arabidopsis thaliana), 3'ss of exon 12
------gtgtcatttgtg-gagaaatacaagatggcattttcatgtgttttcactgatattcaaatgg-atagacaatttatactatattgattctttaaatatgcagTGCTTGCTGAATGGAAGCCCCCAGTATATGATAATAGACGTGGTATAGTTCTTGTAACAGCCACAACGCGCCGTAATTCACCTAAT
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gtaaacctttcagctttatgagaacaaccagttg---tgctaatatgattaccttggagtttggtttacatgaaagatttgtgttcttt---ctttcaaataatgcagTGCTTGCCGAATGGAAGCCTCCGGTATATGACAATGAAGGTGGAATTGTGCTGGTGACTGCAACCACACGCCGCAATTCGCCTAAT
upper sequence: GLYMA19G42530.1 (Glycine max), 3'ss of exon 12
lower sequence: AT5G27410.2 (Arabidopsis thaliana), 3'ss of exon 22
gtgtcatttgtggagaaatacaagatggcattttcatgtgttttcactgatattcaaatggatagacaatttatactatattgattctttaaa----tatgcagTGCTTGCTGAATGGAAGCCCCCAGTATATGATAATAGACGTGGTATAGTTCTTGTAACAGCCACAACGCGCCGTAATTCACCTAAT
| || | |||| | | | | || | | || | ||| ||| | ||| | || || ||| | || ||||||||||||||||||||| || |||||||| ||| | || || || || || || || || || ||||| |||||||| ||
------------gtaaagtttcagatttttctcttgcaagcatacaactaaactctgtggaatatggttttttgagtattatcgtttttcaaaatattgtgtagTGCTTGCTGAATGGAAGCCTCCGGTATATGACAATGATGGCGGAATTGTGCTGGTGACTGCAACTACACGCCGGAATTCACCCAAC
upper sequence: GLYMA19G42530.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv14s0128g00100.t01 (Vitis vinifera), 3'ss of exon 22
gtgtcatttgtggagaaatacaagatggcattttcatgtgttttcact--gatattcaaatggatagacaat-ttatactatatt----gattctttaaatatgcagTGCTTGCTGAATGGAAGCCCCCAGTATATGATAATAGACGTGGTATAGTTCTTGTAACAGCCACAACGCGCCGTAATTCACCTAAT
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-------ttattctaaaaaactaccccttttttggttacctctagaatatgctatccctatgtataggtttccttacacagcagttcatgtctcttgaaaaatgcagTGCTTGCTGAATGGAAGCCACCCGTCTATGACAATACAAAGGGTATTACTCTGGTGACTGCTACTACACGTCGTAATTCACCAAATMapped 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|23064265|gb|BU579038.1|BU579038EST: TTCTTCTGGGATGAGTCCAGCATTCAATCTTTATGGGTGTACATTAATTG TGCTTGCTGAATGTTTTCCCCCAGTATATGATAATAGACGTGGTATAGTTC
genomic: TTCTTCTGGGATGAGTCCAGCATTCAATCTTTATGGGTGTACATTAATTGgtaacttcct ... aaatatgcagTGCTTGCTGAATGGAAGCCCCCAGTATATGATAATAGACGTGGTATAGTTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.actgatattcaaatggatagacaatttatactatattgattctttaaatatgcagTGCTTGCTGAATGGAAGCCCCCAGTATATGATAATAGACGTGGTATAGTTCTTGTAACAGCCACAACGCGCCGTAATTCACCTAAT
tattgat putative branch site (score: 3)
ttcttta CT-rich tract
atagacaatttatact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtcatttgtggagaaatacaagatggcattttcatgtgttttcactgatattcaaatggatagacaatttatactatattgattctttaaatatgcagTGCTTGCTGAATGGAAGCCCCCAGTATATGATAATAGACGTGGTATAGTTCTTGTAACAGCCACAACGCGCCGTAATTCACCTAAT
- - - - tgtggag
- - - - - - - - aatacaag
- - - - - - - - - - - - - ggcattt
- - - - - - - - - - - - - - - - -tcatgtg