Sequence
atgc intronic sequence ATGC exonic sequence...gaaaattttggaactaattcccacactagttctatttttaattttaatttaattctctggaaatttgatttggtttctcttctatgtttaacaaattcagGTTTGCACGTGTTGGATCAGTGGTTTTAGCACTTCATGATGCTAGCGATGTGTTTCTGGAGATAGGGAAAATGTCCAAATACAGTGGTGCTGAAACTATG
Basic information
species | Glycine max |
transcript | GLYMA08G36370.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G36370.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g37080.2 (Oryza sativa), 3'ss of exon 3
----------------------------------------------------------------------------gaaaattttggaactaattcccacactagttctatttttaat-------tttaatttaattctctggaaatttgatttggtt-tctcttctatgtttaacaa--attcagGTTTGCACGTGTTGGATCAGTGGTTTTAGCACTTCATGATGCTAGCGATGTGTTTCTGGAGATAGGGAAAATGTCCAAATACAGTGGTGCTGAAACTATG
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gtctctttttgtctaacttttaatttttgttgtttcttgaatatgaactttttttaccttgattcaagcattactctatgagttagtagcacagggccttaata-ttttatcttcactgagtttatttcactcatttttattaacacttaactaatttatttctgaaatttttcttcatgaaccagGTTTGCTAGAGTTGGCTCAGTAGTATTGGCAATTCATGATGCAAGTGATGTGTTCCTGGAAGTAGGGAAAATGGCCAAATATAGCCATTGTGATTTGCTT
upper sequence: GLYMA08G36370.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G13580.2 (Arabidopsis thaliana), 3'ss of exon 3
-gaaaattttggaactaattcccacactagttctatttttaattttaatttaattc-tctgga--aatttgatttggtt-tctcttctatgtttaacaaattcagGTTTGCACGTGTTGGATCAGTGGTTTTAGCACTTCATGATGCTAGCGATGTGTTTCTGGAGATAGGGAAAATGTCCAAATACAGTGGTGCTGAAACTATG
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gtatgcttccatcgtcacatcctattctatactgaaaaacagaactgattccttttgtccacattgttttgatcttcttgtttctttttctctttatcgctgtagCTTCTCCCGTGTTGGTTCTGTTGTTCTGGCACTTCACGATGCTAGTGATGTGTTTCTTGAGGTTGGGAAAATGTCTAAATATAGTGGAGCTGAAAGAATC
upper sequence: GLYMA08G36370.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G25540.1 (Arabidopsis thaliana), 3'ss of exon 4
gaaaattttggaactaattcccacactagttctatttttaattttaatttaattctctggaaatttgatttggtttctcttctatgtttaacaaattcagGTTTGCACGTGTTGGATCAGTGGTTTTAGCACTTCATGATGCTAGCGATGTGTTTCTGGAGATAGGGAAAATGTCCAAATACAGTGGTGCTGAAACTATG
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----------------gtacgtatatta--tacacttgtgttgtggaggaaaggat----acactgactcttgttttgtttttggatgttgatgatatagATTAACTCGTGCTGGTTCTGTTATTCTTGCACTTCATGATGCGAGCGATGTGTTCCTTGAAATTGGGAAAATGTCTAAATATTGCGGAGCGGAAAGTCTC
upper sequence: GLYMA08G36370.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0010g01110.t01 (Vitis vinifera), 3'ss of exon 3
gaaaattttggaactaattcccacactagttctatttttaattttaatttaattctctggaaatttgatttggtttctcttctatgtttaacaaattcagGTTTGCACGTGTTGGATCAGTGGTTTTAGCACTTCATGATGCTAGCGATGTGTTTCTGGAGATAGGGAAAATGTCCAAATACAGTGGTGCTGAAACTATG
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aaaatgtttggatttcatagtaaataatcttttatgcaatatttctttctttctttctttcatcttttttttttttctctctgatttctgtctcttgcagATTCGCCCGTGTTGGTTCTGTTGTTTTAGCTCTTCATGATGCTAGTGATGTCTTTCTGGAGGTAGGGAAGATGTCCAAATACAAAGGTGCTGAAACCACTMapped 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|151402795|gb|EV272608.1|EV272608EST: AGTCATCATGTTGCTACTGTAATTCTCATTGTTCTGTCTTACATTTTCAG GTTTGCACGTGTTGGATCATTGGTTTTAGCACTTCATGA
genomic: AGTCATCATGTTGCTACTGTAATTCTCATTGTTCTGTCTTACATTTTCAGgtatgttttt ... acaaattcagGTTTGCACGTGTTGGATCAGTGGTTTTAGCACTTCATGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatttaattctctggaaatttgatttggtttctcttctatgtttaacaaattcagGTTTGCACGTGTTGGATCAGTGGTTTTAGCACTTCATGATGCTAGCGATGTGTTTCTGGAGATAGGGAAAATGTCCAAATACAGTGGTGCTGAAACTATG
gtttaac putative branch site (score: 3)
tatgtttaacaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaaattttggaactaattcccacactagttctatttttaattttaatttaattctctggaaatttgatttggtttctcttctatgtttaacaaattcagGTTTGCACGTGTTGGATCAGTGGTTTTAGCACTTCATGATGCTAGCGATGTGTTTCTGGAGATAGGGAAAATGTCCAAATACAGTGGTGCTGAAACTATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - -ttcccac
- - - - - - - - - - - - - - - - - - - - - - - - - - - ctctgga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgatttg