Sequence
atgc intronic sequence ATGC exonic sequence...atgttactagttatgttgtcatttcatgcttgtctcttttgcttttctagagcaatgtggatggattctcattagtcttaactcattatggctgatgcagCTGGACAGGAGAGGTTCAGAACATTGACAAGCTCTTACTATAGAGGTGCCCAAGGGATTATTCTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g04740.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os10g31830.2 (Oryza sativa), 3'ss of exon 2
--atgttactagttatgttgtcatttcatgcttgtctcttttgcttttctagagcaatgtggatggattctcattagtcttaactcattatggc----tgatgcagCTGGACAGGAGAGGTTCAGAACATTGACAAGCTCTTACTATAGAGGTGCCCAAGGGATTATTCTTG
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aaacaaaatgaaccatgctattgttgaatggaaaa----tggattactttacagtatttccaat--atctcaaatattctgacagcactattatgttgtgttgcagCTGGCCAGGAGAGGTTTAGGACAATTACTAGTTCTTACTACAGAGGTGCTCAAGGCATTATTCTAG
upper sequence: Vv08s0007g04740.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G075051_T01 (Zea mays), 3'ss of exon 2
atgttactagttatgttgtcatttcatgcttgtctcttttgcttttctagagcaatgtggatggattctcattagtc--ttaactcattatggctgatgcagCTGGACAGGAGAGGTTCAGAACATTGACAAGCTCTTACTATAGAGGTGCCCAAGGGATTATTCTTG
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--gaggcaaaaccttctgctgtgttttttcttacttcaatgcaaggcagatatcctgccacttcatttcaaataaataaataaatacatacaatgcttgcagCTGGCCAGGAGAGGTTTAGGACAATTACTAGTTCTTACTACAGAGGTGCTCAGGGAATTATTCTAG
upper sequence: Vv08s0007g04740.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA10G06780.1 (Glycine max), 3'ss of exon 2
--------------------------------------------------------------------------------------------atgttactagttatgttgtcatttcatgcttgtctcttttgcttttctagagcaatgtggatggattctcattagtcttaactcattatggctgatgcagCTGGACAGGAGAGGTTCAGAACATTGACAAGCTCTTACTATAGAGGTGCCCAAGGGATTATTCTTG
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gtaatagttgctcgaatctttagcttctagttcatgagttggaccatttttaagttctgggttcatttgaattagatgcaaacaaatataatgaaatatttcttatagggtctttctgt-tgaatcactttccattgaccaaaatggt-tgattgaagtgttat-attaataacattacatccatattgcagCTGGACAGGAAAGGTTCAGAACGCTAACTAGTTCTTACTATAGAGGAGCGCAAGGAATCATTCTTG
upper sequence: Vv08s0007g04740.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G20970.1 (Glycine max), 3'ss of exon 2
--------------------------------------------------------------------------------------atgttactagttatgttgtcatttcatgcttgt-ctcttttgcttttc-tagagcaatgtggatggattctcattagtcttaactcattatggctg--atgcagCTGGACAGGAGAGGTTCAGAACATTGACAAGCTCTTACTATAGAGGTGCCCAAGGGATTATTCTTG
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gtaataaaaactcgaatctttagctgctagttcatgaattggaccatttttaagtttctggcatcatgtggattgaatgcaaacaaatataatgaaatat-ttcttatagggtctttctgttcaatcactttccattgaccaaaatggttg-attgaagtggaattaataacattacatctatattgcagCTGGGCAGGAAAGGTTCAGAACGCTAACTAGTTCTTACTATAGAGGAGCACAGGGAATTATTCTTG
upper sequence: Vv08s0007g04740.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G03530.1 (Arabidopsis thaliana), 3'ss of exon 2
atgttactagttatgttgtcatttcatgcttgtctcttttgcttttcta-gagcaatgtggatggattctcattagtcttaactcattatggctgatgcagCTGGACAGGAGAGGTTCAGAACATTGACAAGCTCTTACTATAGAGGTGCCCAAGGGATTATTCTTG
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-----gtgaatgattctat-attttgagattattatagaagttttattgtaaataaaactaatgg-ttctgat-aatatt--ctcggttttctcattgtagCTGGACAGGAACGGTTTAGAACACTGACAAGCTCTTACTACAGAGGCGCCCAAGGAATCATTCTCGMapped 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|110391637|gb|EC956625.1|EC956625EST: GCAGCTAACTGTTGGTGGGAAGAGATTGAAGCTTACAATCTGGGACACTG CTGGACAGGAGAGGTTCAGAACATTGACAAGCTCTTACTATAGAGGTGCCC
genomic: GCAGCTAACTGTTGGTGGGAAGAGATTGAAGCTTACAATCTGGGACACTGgtaatatgtg ... gctgatgcagCTGGACAGGAGAGGTTCAGAACATTGACAAGCTCTTACTATAGAGGTGCCC
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctagagcaatgtggatggattctcattagtcttaactcattatggctgatgcagCTGGACAGGAGAGGTTCAGAACATTGACAAGCTCTTACTATAGAGGTGCCCAAGGGATTATTCTTG
tcattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgttactagttatgttgtcatttcatgcttgtctcttttgcttttctagagcaatgtggatggattctcattagtcttaactcattatggctgatgcagCTGGACAGGAGAGGTTCAGAACATTGACAAGCTCTTACTATAGAGGTGCCCAAGGGATTATTCTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - -tgttgtc
- - - - - - - - - - - -tcatgct
- - - - - - - - - - - - - - - tgtctct
- - - - - - - - - - - - - - - - - - - - - - - - - agcaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggatgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aactcat