Sequence
atgc intronic sequence ATGC exonic sequence...gcattgaaaaccagatttatcattacttatttctctagcatccttcttgatccaaactactcattggattttattcagtccttttctgtattgtatatagGTATCACAACATTAGTGGGAGGAGGAACAGGACCAGCTGATGGAACACGTGCTACAACTTGTACACCAGCACCAAATCAGATGAAATTGATGCTACAATC
Basic information
species | Glycine max |
transcript | GLYMA11G37250.2 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 10
lower sequence: 13114.m00153 (Oryza sativa), 3'ss of exon 12
gcattgaaaaccagatttatcattacttatttctctagcatccttcttgatccaa-actactcattggattt------tattcagtccttttctgtattgtatatagGTATCACAACATTAGTGGGAGGAGGAACAGGACCAGCTGATGGAACACGTGCTACAACTTGTACACCAGCACCAAATCAGATGAAATTGATGCTACAATC
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-------gaattatatatttttgtaccatttgatttggattcgttggttataaatcatgagaagtttgactgctaaagtatttcgttacttccgcatttacttatagGCATCACAACATTGGTGGGAGGTGGAACTGGACCAGCACATGGAACTTGTGCCACAACTTGCACCCCTTCACCATCTCACATGAAACTAATGCTACAGTC
upper sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 10
lower sequence: GRMZM2G060656_T01 (Zea mays), 3'ss of exon 3
gcattgaaaaccagatttatcattacttatttctctagcatccttcttgatccaaactactcattggattttattcagtcctttt-ctgtattg-----tatatagGTATCACAACATTAGTGGGAGGAGGAACAGGACCAGCTGATGGAACACGTGCTACAACTTGTACACCAGCACCAAATCAGATGAAATTGATGCTACAATC
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------ttagttaagtttcaaatatgatgtgtgtcttatgtgccatgtgacccaggttagtcagtgatataaatgaaaactttaagttatatcaatatttgtgtagGCATCACGACATTAGTGGGTGGTGGAACCGGACCAGCACATGGAACTTGTGCCACAACTTGCACTCTAGCACCATCTCAATTGAAATTAATGTTGCAGTC
upper sequence: GLYMA11G37250.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv01s0010g02760.t01 (Vitis vinifera), 3'ss of exon 9
gcattgaaaaccagatt-tatcattacttatttctctagcatccttcttgatccaaactactcattggattttattcagtccttttctgtat---tgtatatagGTATCACAACATTAGTGGGAGGAGGAACAGGACCAGCTGATGGAACACGTGCTACAACTTGTACACCAGCACCAAATCAGATGAAATTGATGCTACAATC
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--agcagaatctggatgatatggtggatcatttttc-attgtgctggttaaaccat-tttccctttttatcatcttcattttctttttccataaatatatgtagGCATCACAACATTAGTGGGCGGTGGAACGGGACCTGCTGATGGAACTCGTGCAACTACTTGTACGCCAGCAGCCTCACATATGAAATTTATGCTGCAATCMapped 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|151394452|gb|EV264323.1|EV264323EST: TCATGTGCATTTTATATGTCCTCAATTAGTATATGATGCCGTAACAAGTG GTATCACAACATTAGTGGGAGGAGGAACAGGACCAGCTGATGGAACACGTG
genomic: TCATGTGCATTTTATATGTCCTCAATTAGTATATGATGCCGTAACAAGTGgtaagtttca ... ttgtatatagGTATCACAACATTAGTGGGAGGAGGAACAGGACCAGCTGATGGAACACGTG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgatccaaactactcattggattttattcagtccttttctgtattgtatatagGTATCACAACATTAGTGGGAGGAGGAACAGGACCAGCTGATGGAACACGTGCTACAACTTGTACACCAGCACCAAATCAGATGAAATTGATGCTACAATC
tcttgat putative branch site (score: 4)
tccttttctgtatt putative PPT
tattgtatata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcattgaaaaccagatttatcattacttatttctctagcatccttcttgatccaaactactcattggattttattcagtccttttctgtattgtatatagGTATCACAACATTAGTGGGAGGAGGAACAGGACCAGCTGATGGAACACGTGCTACAACTTGTACACCAGCACCAAATCAGATGAAATTGATGCTACAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG