Sequence
atgc intronic sequence ATGC exonic sequence...agcttctcttgttcccatttgatatagttttgtctctcgtctgtaaaaagctcctcttgtaaatttatccgtgtttaattttgcttatgccatacaacagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCAAAGTCATGGTTGCTGGTCTCCTCTGCTTTATGTGGGCAATGCTCACAGCATTAGGATTGTCTAATCT
Basic information
species | Glycine max |
transcript | GLYMA11G19420.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G19420.1 (Glycine max), 3'ss of exon 8
lower sequence: GRMZM2G095611_T03 (Zea mays), 3'ss of exon 8
-------agct-tctcttgttcccatttgatatagttttgtctctcgtctgtaaaaagctcctcttgtaaatttatccgtgtttaattttgcttatgccatacaacagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCAAAGTCATGGTTGCTGGTCTCCTCTGCTTTATGTGGGCAATGCTCACAGCATTAGGATTGTCTAATCT
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gtaagaaaactattttgcattttcatttcagtgaaaaaattctcatg-ctgtgagaaaaggtaatcaaaggttcttgcttatc-actgttattatgactcttttgtagGAAAAGTCGGTGCATTCATTGCTTCTATTCCTGATGTTATGGTTGCTGCTCTCCTTTGCTTCATGTGGGCTATGCTCTGTGCTCTTGGCTTGTCCAATCT
upper sequence: GLYMA11G19420.1 (Glycine max), 3'ss of exon 8
lower sequence: AT2G27810.3 (Arabidopsis thaliana), 3'ss of exon 8
--agcttctcttgttcccatttgatat-agttttgtctctcgtctgtaaaaagctcctcttgtaaatttatccgtgtttaattttgcttatgccatacaacagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCAAAGTCATGGTTGCTGGTCTCCTCTGCTTTATGTGGGCAATGCTCACAGCATTAGGATTGTCTAATCT
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acaagtaactatacatcaatagcatctgaaaattagctcaactgtacaacaggtaccattttttactct--ctttgactaaaacagtttttgatgtcct-cagGTAAGGTTGGAGGGTTTCTCGCATCAATTCCGCAAGTCATGGTTGCTTCTCTTCTGTGCTTCATGTGGGCAATGTTTACGGCTTTAGGTCTTTCCAACTT
upper sequence: GLYMA11G19420.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv06s0061g01310.t01 (Vitis vinifera), 3'ss of exon 8
agcttctcttgttcccatttgatatagttttgtctct-cgtctgtaaaaagctcctcttgtaaatttatccgtgtttaattttgcttatgccataca-acagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCAAAGTCATGGTTGCTGGTCTCCTCTGCTTTATGTGGGCAATGCTCACAGCATTAGGATTGTCTAATCT
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-cctttcattgacttcata-aaggtatggaggtctctacttctctgctatcctttaatttattgcccttcaaggcctaatctcatttcaatcatgttcacagGTAAAGTTGGAGGGTTTATTGCTTCAATTCCTGAAGTCATGGTTGCTGCTCTCCTGTGCTTCATGTGGGCAATGCTTGCAGCATTGGGGTTGTCAAATTTMapped 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|6072991|gb|AW102378.1|AW102378EST: CAAGGCAGTTCAACTGGGTGCATGCTTTCTGATAGTGTTATCGCTTGTAG GTAAGGTTGGAGGATTCATTGCTTCAATTCCCAAAGTCATGGTTGCTGGTC
genomic: CAAGGCAGTTCAACTGGGTGCATGCTTTCTGATAGTGTTATCGCTTGTAGgtaagtgttt ... catacaacagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCAAAGTCATGGTTGCTGGTC
EST:
gi|19453481|gb|BM954891.1|BM954891EST: CAAGGCAGTTCAACTGGGTGCATGCTTTCTGATAGTGTTATCGCTTGTAG GTAAGGTTGGAGGATTCATTGCTTCAATTCCCAAAGTCATGGTTGCTGGTC
genomic: CAAGGCAGTTCAACTGGGTGCATGCTTTCTGATAGTGTTATCGCTTGTAGgtaagtgttt ... catacaacagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCAAAGTCATGGTTGCTGGTC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaagctcctcttgtaaatttatccgtgtttaattttgcttatgccatacaacagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCAAAGTCATGGTTGCTGGTCTCCTCTGCTTTATGTGGGCAATGCTCACAGCATTAGGATTGTCTAATCT
gtttaat putative branch site (score: 4)
tttaattttgcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agcttctcttgttcccatttgatatagttttgtctctcgtctgtaaaaagctcctcttgtaaatttatccgtgtttaattttgcttatgccatacaacagGTAAGGTTGGAGGATTCATTGCTTCAATTCCCAAAGTCATGGTTGCTGGTCTCCTCTGCTTTATGTGGGCAATGCTCACAGCATTAGGATTGTCTAATCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
-gcttctc
- - - - -tgttccc
- - - - - - - - - - - - - - - - - - - gtctgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ccgtgtt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcttatg