Sequence
atgc intronic sequence ATGC exonic sequencegtaagttgaattgatgtctaactagtttgtagtattgttctccatcctatagttgcattgtgattgttgataatcatcatctttttggattttgttgatctttgattgttttatatgccagCCTGCACAGATTGCTGGATGTAAAACTATTGTCCTTGCAACTCCTCCAGCTCAGGATGGTACTATATGCAAG
Basic information
species | Glycine max |
transcript | GLYMA08G08630.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G08630.1 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os01g13190.1 (Oryza sativa), 3'ss of exon 5
gtaagttgaattgatgtctaactagtttgtagtattgttctccatcctatagttgcattgtgattgttgataatcatcatctttttggattttgttgatctttgattgttttatatgccagCCTGCACAGATTGCTGGATGTAAAACTATTGTCCTTGCAACTCCTCCAGCTCAGGATGGTACTATATGCAAG
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--------------------------gtatggtcatgttttcttaaattgtgttaactcatcattctc--ttctcattgttttttacaatttaat--atagtaaatctctttct--gccagCCTGCACAGATTGCTGGTTGCAAAACTGTTGTTCTTGCCACACCCCCTAGTCGTGATGGTAGCATATGTAAG
upper sequence: GLYMA08G08630.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G058584_T01 (Zea mays), 3'ss of exon 7
gtaagttgaattgatgtctaactagtttgtagtattgttctccatcctatagttgcattgtgattgttgataatcatcatctttttggattttgttgatctttgattgttttatatgccagCCTGCACAGATTGCTGGATGTAAAACTATTGTCCTTGCAACTCCTCCAGCTCAGGATGGTACTATATGCAAG
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----------------------------gtatgcttgcctctactcaaatcctctcaactgaattaagattattaattcactgtttgaagcttttca---tatagtttctctttctgccagCCTGCACAGATTGCTGGATGCAAAACTATTGTTCTTGCCACACCACCTAGCCGTGATGGTAGCATATGCAAG
upper sequence: GLYMA08G08630.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G63890.2 (Arabidopsis thaliana), 3'ss of exon 6
gtaagttgaattgatgtctaactagtttgtagtattgttctccatcctatagttgcattgtgattgt-tgataatcatcatctttttggattttgttgatctttgattgttttatatgccagCCTGCACAGATTGCTGGATGTAAAACTATTGTCCTTGCAACTCCTCCAGCTCAGGATGGTACTATATGCAAG
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----------------gtaagttctcatgttttatacttttgcttgtt-catttctcttgtaattttgtaataatc-ttgtcttctt---tttccttaccctatacttctctc-----tcagCCTGCTCAAATTGCTGGATGTAAAACAGTTGTTCTTGCAACTCCACCAAGTAAGGATGGAAGCATTTGTAAG
upper sequence: GLYMA08G08630.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv18s0166g00300.t01 (Vitis vinifera), 3'ss of exon 7
gtaagttgaattgatgt-ctaactagtttgtagtatt--gttctccatcctatag--ttgcattgtgattgttgataat-catcatctttt--tggattttgttgatctttgattgttttatat-gccagCCTGCACAGATTGCTGGATGTAAAACTATTGTCCTTGCAACTCCTCCAGCTCAGGATGGTACTATATGCAAG
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gtaggttgatcaaatttaccaagtcaattgccttttttagttcatcttcctacaaatctttatttagatcctcgactttgtgatgtctgttgccacatttgattga-cattgagtatgttctgtcaccagCCTGCACAGATTGCTGGGTGTAAGACTGTTGTCCTTGCAACTCCCCCTAGTCAAGATGGCGGCATCTGCAAGMapped 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|213599125|gb|DB958372.1|DB958372EST: TCCCAGGGGGAACTGCTGTATTACCCTCAACAGCTCTGATGCTTTCAGTT CCTGCACAGATTGCTGGATGTAAAACTATTGTCCTTGCAACTCCTCCAGCT
genomic: TTCCAGGGGGAACTGCTGTATTACCCTCAACAGCTCTGATGCTTTCAGTTgtaagttgaa ... tatatgccagCCTGCACAGATTGCTGGATGTAAAACTATTGTCCTTGCAACTCCTCCAGCT
EST:
gi|209698125|gb|BW661068.1|BW661068EST: TTCCAGGGGGAACTGCTGTATTACCCTCAACAGCTCTGATGCTTTCAGTT CCTGCACAGATTGCTGGATGTAAAACTATTGTCCTTGCAACTCCTCCAGCT
genomic: TTCCAGGGGGAACTGCTGTATTACCCTCAACAGCTCTGATGCTTTCAGTTgtaagttgaa ... tatatgccagCCTGCACAGATTGCTGGATGTAAAACTATTGTCCTTGCAACTCCTCCAGCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgataatcatcatctttttggattttgttgatctttgattgttttatatgccagCCTGCACAGATTGCTGGATGTAAAACTATTGTCCTTGCAACTCCTCCAGCTCAGGATGGTACTATATGCAAG
ttgtttt CT-rich tract
tttgattgttttatat 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
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gtaagttgaattgatgtctaactagtttgtagtattgttctccatcctatagttgcattgtgattgttgataatcatcatctttttggattttgttgatctttgattgttttatatgccagCCTGCACAGATTGCTGGATGTAAAACTATTGTCCTTGCAACTCCTCCAGCTCAGGATGGTACTATATGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG