Sequence
atgc intronic sequence ATGC exonic sequencegtttttcttttttctttttctttgtctgtcttttttattcccaaataaataataatcttatgtgagatatggctctcatgaaaattccaaatgttggctataaataaatatttttgctggtttttcagGAGCTTATTCAACAAATGGCTAATGTCCAGTACACGGAGAACTTGACTGAGGAACAGTTGGATGCAATGGCAGGGAGTGAGACTCTCAGATATCAAGCAA
Basic information
species | Glycine max |
transcript | GLYMA08G05320.1 |
intron # | 17 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G05320.1 (Glycine max), 3'ss of exon 17
lower sequence: LOC_Os01g68810.1 (Oryza sativa), 3'ss of exon 20
gtttttcttttttctttttctttgtctgtcttttttattcccaaataaataataatcttatgtgagatatggctctcatgaaaattccaaatgttggctataaataaatatttttgctggtttttcagGAGCTTATTCAACAAATGGCTAATGTCCAGTACACGGAGAACTTGACTGAGGAACAGTTGGATGCAATGGCAGGGAGTGAGACTCTCAGATATCAAGCAA
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---------------------------------------gtctactactggctactgtcaagcttccccttgctaccttggaa-ttgtatgtgt---ctgaagtctaatatgatcact---cctgcagGAACTCATTCAGCAAATGGCAAATGTGCAATACACTGAGAACATGACTGAGGAGCAGGTTGATGCTATGGCAGGGAGTGAAACATTGCGGCTTCAAGCTT
upper sequence: GLYMA08G05320.1 (Glycine max), 3'ss of exon 17
lower sequence: AT1G24706.1 (Arabidopsis thaliana), 3'ss of exon 21
gtttttcttttttctttttctttgtctgtcttttttattcccaaataaataataatcttatgtgagatatggctctcatgaaaat-tccaaatgttggctataaataaatatttttgctggtttttcagGAGCTTATTCAACAAATGGCTAATGTCCAGTACACGGAGAACTTGACTGAGGAACAGTTGGATGCAATGGCAGGGAGTGAGACTCTCAGATATCAAGCAA
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---------------------------------------------------gtacgcttttg--gtttgtaattcttatgtacttattcagactaagggtggctgactgtaatttcataatgactgtagGAACTGGTCCAGCAGATGGCAAATGTACAATACACTGAGAACCTTACTGAAGATCAGTTGGATGCCATGGCAGGAAGTGAGACTTTACGTTATCATGCAA
upper sequence: GLYMA08G05320.1 (Glycine max), 3'ss of exon 17
lower sequence: Vv01s0011g06090.t01 (Vitis vinifera), 3'ss of exon 1
gtttttcttttttctttttctttgtctgtcttttttattcccaaataaataataatcttatgtgagatat-ggctctcatgaaaattccaaatgttg--gctataaataaatatttttgctggtttttcagGAGCTTATTCAACAAATGGCTAATGTCCAGTACACGGAGAACTTGACTGAGGAACAGTTGGATGCAATGGCAGGGAGTGAGACTCTCAGATATCAAGCAA
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----------------------------------gtatttcttgttgtacatttggattattccaattatcagacctcattaag-ccctaaactttgcagttattttttggaatctc-atgattggtacagGAACTGATCCAACAGATGGCAAATGTTCAGTACACGGAGAACCTGACTGAGGAACAGTTGGATGCTATGGCAGGGAGTGAGACCCTCCGGTATCAGGCTAMapped 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|193324471|gb|FK289643.1|FK289643EST: TGTGAATCAGTTAAAAAAGGGGACAGGGAATTGAGCTTGTTCTACTGCAG GAGCTTATTCAACAAATGGCTAATGTCCAGTACACGGAGAACTTGACTGAG
genomic: TGTGAATCAGTTAAAAAAGGGG-CAGGGAATTGAGCTTGTTCTACTGCAGgtttttcttt ... ggtttttcagGAGCTTATTCAACAAATGGCTAATGTCCAGTACACGGAGAACTTGACTGAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcatgaaaattccaaatgttggctataaataaatatttttgctggtttttcagGAGCTTATTCAACAAATGGCTAATGTCCAGTACACGGAGAACTTGACTGAGGAACAGTTGGATGCAATGGCAGGGAGTGAGACTCTCAGATATCAAGCAA
tttttc CT-rich tract
aaatgttggctataaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttttcttttttctttttctttgtctgtcttttttattcccaaataaataataatcttatgtgagatatggctctcatgaaaattccaaatgttggctataaataaatatttttgctggtttttcagGAGCTTATTCAACAAATGGCTAATGTCCAGTACACGGAGAACTTGACTGAGGAACAGTTGGATGCAATGGCAGGGAGTGAGACTCTCAGATATCAAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA