Sequence
atgc intronic sequence ATGC exonic sequence...ttccagttaccaaatattgatggtaaatcagcataattcatcttctgatgagtaatatggaggaaaactcaatttggtttttcccttcaactgctttcagGAGATAAAGACTGTGGAACTTGTCAAGCCAACTGGTTGGGTTTACATATCCCTATCTGGAAATGATCCTCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g01940.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G21840.1 (Glycine max), 3'ss of exon 1
ttccagttaccaaatattgatggtaaatcagcataattcatcttctgatgagtaatatggaggaaaactcaatttggtttttcccttca-actgctttcagGAGATAAAGACTGTGGAACTTGTCAAGCCAACTGGTTGGGTTTACATATCCCTATCTGGAAATGATCCTCG
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---------gtaaatttttatttta--ttggtttgggtttgattgggatgattatggttga--------ttatttggtgttgactttgggaacatttttagGAGATTAAGACTGTGGAACTCGTGAAGCCAACTGGGTGGGTTTATCTATCCTTTTCTGGAGTTGATCCTAG
upper sequence: Vv04s0023g01940.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G06190.2 (Glycine max), 3'ss of exon 4
ttccagttaccaaatattgatggtaaatcagcataattcatcttctgatgagtaatatggaggaaaactcaatttggtttttcccttca-actgctttcagGAGATAAAGACTGTGGAACTTGTCAAGCCAACTGGTTGGGTTTACATATCCCTATCTGGAAATGATCCTCG
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-----------gtaaattttttttttattggtttgggtt-tgattgggttggttat-----ggttaatt--atttggtgatgactttgggaacatttttaggagattaagACCGTGGAACTCGTGAAGCCAACTGGGTGGGTTTATCTATCCTTATCTGGAGTTGATCCTAG
upper sequence: Vv04s0023g01940.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G08170.1 (Glycine max), 3'ss of exon 1
ttccagttaccaaatattgatggtaaatcagcataattcatcttctgatgagtaatatggagga--aaactcaat---ttggtttttcccttca-actgctttcagGAGATAAAGACTGTGGAACTTGTCAAGCCAACTGGTTGGGTTTACATATCCCTATCTGGAAATGATCCTCG
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----------------------gtaaatttttat--tttattggtttgggtttgattgggatgattatgcttaattatttggtgttgactttgggaacatttttagGAGATTAAGACCGTGGAACTCGTGAAGCCAACTGGGTGGGTTTATCTATCCTT------------------
upper sequence: Vv04s0023g01940.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G25220.1 (Glycine max), 3'ss of exon 3
ttccagttaccaaatattgatggtaaatcagcataattcatcttctgatgagtaatatggaggaaaactcaatttggtttttcccttca-actgctttcagGAGATAAAGACTGTGGAACTTGTCAAGCCAACTGGTTGGGTTTACATATCCCTATCTGGAAATGATCCTCG
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----------------------gtaattct-tattattggtttggatttgattgggatggtcaa-----ttatttggtgatgactttgggaacatttttagGAGATTAAGACCGTGGAACTCGTGAAGCCAACTGGATGGGTTTATCTTTCCTTGTCTGGAGTTGATCCTAGMapped 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|83274535|gb|DV938632.1|DV938632EST: CGCCGAGTAAGATCTCTATTCGAGCCGGAGATGGCTTCCACAACTTGAAG GAGATAAAGACTGTGGAACTTGTCAAGCCAACTGGTTGGGTTTACATATCC
genomic: CGCCGAGTAAGATCTCTATTCGAGCCGGAGATGGCTTCCACAACTTGAAGgtgactacag ... ctgctttcagGAGATAAAGACTGTGGAACTTGTCAAGCCAACTGGTTGGGTTTACATATCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatgagtaatatggaggaaaactcaatttggtttttcccttcaactgctttcagGAGATAAAGACTGTGGAACTTGTCAAGCCAACTGGTTGGGTTTACATATCCCTATCTGGAAATGATCCTCG
ttctgat putative branch site (score: 3)
tttttcccttcaactg putative PPT
agtaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttccagttaccaaatattgatggtaaatcagcataattcatcttctgatgagtaatatggaggaaaactcaatttggtttttcccttcaactgctttcagGAGATAAAGACTGTGGAACTTGTCAAGCCAACTGGTTGGGTTTACATATCCCTATCTGGAAATGATCCTCG
- - - -taccaaa
- - - - - - - - -tgatggt
- - - - - - - - - - - - aaatcag
- - - - - - - - - - - - - - - - - - - catcttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggaaaac