Sequence
atgc intronic sequence ATGC exonic sequencegttagggaatattgacaacaaactagaaaagactgaataccatttcatatattttctgataaaaaatatatgaatctctttgttggagcacatgtttgtatacaatgctcattgctcatctttctttctgtcgtactacatgttagGTTGCGGCTATGTTTAAGATTGGAAACAGCAAGGACCTTCCTGCAATGCCAGATCATCTATCAGAAGATGGAAAAGATTTTATCAGGCAATGCTTGCAAA
Basic information
species | Glycine max |
transcript | GLYMA01G42960.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA01G42960.1 (Glycine max), 3'ss of exon 8
lower sequence: AC209208.3_FGT001 (Zea mays), 3'ss of exon 8
gttagggaatattgacaacaaactagaaaagactgaataccatttcatatatt-ttctgataaaaaatatatgaatctctttgttggagcacatgtttgtatacaatgctcattgctcatctttctttctgtcgtactacatgttagGTTGCGGCTATGTTTAAGATTGGAAACAGCAAGGACCTTCCTGCAATGCCAGATCATCTATCAGAAGATGGAAAAGATTTTATCAGGCAATGCTTGCAAA
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------------------------------------------ttatagacatagtactaatgctgagt-tatcttttgttttgtaagatactgttgtccttcaaaatgtaacatg-tcactttacttttttactt-ctccaa--tagATTGCCGCAATGTTTAAGATAGGAAACAGTAAGGAGCTTCCACCAATACCGGATCACCTCTCAGAAGAAGGGAAAGACTTCATAAGACAGTGCTTGCAAC
upper sequence: GLYMA01G42960.1 (Glycine max), 3'ss of exon 8
lower sequence: AT1G63700.1 (Arabidopsis thaliana), 3'ss of exon 8
gttagggaatattgacaacaaactagaaaagactgaataccatttcatatattttctgataaaaaatatatgaatctctttgttggagcacatgtttgtatacaatgctcattgctcatctttctttctgtcgtactacatgttagGTTGCGGCTATGTTTAAGATTGGAAACAGCAAGGACCTTCCTGCAATGCCAGATCATCTATCAGAAGATGGAAAAGATTTTATCAGGCAATGCTTGCAAA
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------------------------------------------------------gttagtaaatcatataagtac-------tcaacaaacatgagattgaatgatgcgactcttccatccttatgtat-tcg-agttctttacagGTTCCTGCTATGTTCAAGATTGGAAACAGCAAGGAGCTTCCAGATATCCCTGATCATTTATCTGAAGAGGGGAAGGATTTTGTAAGAAAATGCCTACAAA
upper sequence: GLYMA01G42960.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv02s0025g03370.t01 (Vitis vinifera), 3'ss of exon 10
-----gttagggaatattgacaacaaactagaaaagactgaataccatttcatatattttctgataaaaaatatatgaatctctttgttggagca----catgtttg-tatac---aatgctcattgctcatctttctttctgtcgtactacatgtt-------agGTTGCGGCTATGTTTAAGATTGGAAACAGCAAGGACCTTCCTGCAATGCCAGATCATCTATCAGAAGATGGAAAAGATTTTATCAGGCAATGCTTGCAAA
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gtaggcattcaaaattgtgttttttattttccaaatattgcac-ttaatcaatgtctcttcttgta---actatattcatatctcagtgagagcattgacatgctagacatactggagtgtgcttgacccattttttctctta-cattctaccttcttctccaaagGTTGCTGCTATGTTTAAGATTGGTAACAGTAAAGAACTTCCCACAATACCTGATCATCTCTCAGAGGAGGGCAAGGACTTTGTAAGGCAGTGCTTGCAACMapped 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|192322612|gb|FK014733.1|FK014733EST: CTACTACAAAACCTCCTTGGAGCCAATACGAAGGG GTCGCGGCTATGTTTAAGATTGGAAACAGCAAGGACCTTCCTGCAATGCCA
genomic: CTACTACAAAACCTCCTTGGAGCCAATACGAAGGGgttagggaat ... tacatgttagGTTGCGGCTATGTTTAAGATTGGAAACAGCAAGGACCTTCCTGCAATGCCA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgtttgtatacaatgctcattgctcatctttctttctgtcgtactacatgttagGTTGCGGCTATGTTTAAGATTGGAAACAGCAAGGACCTTCCTGCAATGCCAGATCATCTATCAGAAGATGGAAAAGATTTTATCAGGCAATGCTTGCAAA
tatacaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagggaatattgacaacaaactagaaaagactgaataccatttcatatattttctgataaaaaatatatgaatctctttgttggagcacatgtttgtatacaatgctcattgctcatctttctttctgtcgtactacatgttagGTTGCGGCTATGTTTAAGATTGGAAACAGCAAGGACCTTCCTGCAATGCCAGATCATCTATCAGAAGATGGAAAAGATTTTATCAGGCAATGCTTGCAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA