Sequence
atgc intronic sequence ATGC exonic sequence...atcctcttttaaataaactcactgatgtttttcttattttgatatagttttgtacattctggtcaatgtgaggtgcaatgatatcttctgttggttgcagATGGCAGATCCCTTGACAGCCTTGATGTATGCAGTCCAAGTGATGAATTTTCTCAAGACTTTGATAATCAGGACGCTTAGGGAAAGGGAGGACTCAATAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g03140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os12g05900.1 (Oryza sativa), 3'ss of exon 4
atcctcttttaaataaactcactgatgt-ttttcttattttgat-atagttttgtacattctggtcaatgtgaggtgcaatgatatcttctgttggttgcagATGGCAGATCCCTTGACAGCCTTGATGTATGCAGTCCAAGTGATGAATTTTCTCAAGACTTTGATAATCAGGACGCTTAGGGAAAGGGAGGACTC-AATAG
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---------------------gtagtgtgttatcctattgcgatcatggtactg-atatttcattaggtg-gattctaactgttgtcacacatgtaatgcagATGGCAGATCCCTTGACTGCATTGATGTATGCAGTACAAGTGATGAATTTTCTTAAGATGCTAATACAAAAAACCCTCAAGGATAGAGAAGAGTCTGATC-
upper sequence: Vv08s0007g03140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os11g05540.1 (Oryza sativa), 3'ss of exon 4
atcctcttttaaataaactcactgatgtttttcttattttgatatagttttgtacattctggtcaatgtgaggtgcaatgatatcttctgttggttgcagATGGCAGATCCCTTGACAGCCTTGATGTATGCAGTCCAAGTGATGAATTTTCTCAAGACTTTGATAATCAGGACGCTTAGGGAAAGG-GAGGACTCAATAG
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-------------gtaatgcactgtcctaataataaactt---atgatttta---agtgtggtcgatgcttactgtcatg----cacatatgtaatgcagATGTCAGATCCATTGACCGCACTGATGTATGCGGTGCAAGTGATGAATTTTCTCAAGATGCTAATACAGAAGACCCTCAAGGGTAGACAAGAGTCCAATC-
upper sequence: Vv08s0007g03140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G136069_T01 (Zea mays), 3'ss of exon 3
atcctcttttaaataaactcactgatgtttttcttattttgatatagttttgtacattctggtcaatgtgaggtgcaatgatatcttctgttggt----------tgcagATGGCAGATCCCTTGACAGCCTTGATGTATGCAGTCCAAGTGATGAATTTTCTCAAGACTTTGATAATCAGGACGCTTAGGGAAAGGGAGGACTCAATAG
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gtattgcattgtgctaat--attgtagcaattagcaaactagcaatatatacctcaccccgagcagtggaacggttatgcgtgctaactattagcaaacttacaatgcagATGGCAGATCCTTTGACTGCACTGATGTATGCAGTCCAAGTGATGAATTTTCTCAAGATGCTGGTACAAAAGACCCTCAAGGATAGAGAGGAGTCCACTC
upper sequence: Vv08s0007g03140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G113073_T01 (Zea mays), 3'ss of exon 4
atcctcttttaaataaactcactgatgtttttcttatt-ttgatatagttttgtacattctggtcaatgtgaggtgcaatgatatcttctgttggttgcagATGGCAGATCCCTTGACAGCCTTGATGTATGCAGTCCAAGTGATGAATTTTCTCAAGACTTTGATAATCAGGACGCTTAGGGAAAGGGAGGACTCAATAG
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gtattgcattgtgctgatacgatagcgattagcaaactatcaatatatactt---caccc--atcacaatgatgc-taactatagcacgcttacaatgcagATGGCAGATCCTTTGACTGCACTGATGTATGCAGTCCAAGTGATGAATTTTCTCAAGATGCTGGTACAAAAGACCCTCAAGGATAGAGAGGAGTCGACCC
upper sequence: Vv08s0007g03140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G38120.1 (Glycine max), 3'ss of exon 4
atcctcttttaaataaactcactgatgtttttcttattttgatatagttttgtacattctg-gtcaatgtgaggtgcaatgatatct--tctgttggttgcagATGGCAGATCCCTTGACAGCCTTGATGTATGCAGTCCAAGTGATGAATTTTCTCAAGACTTTGATAATCAGGACGCTTAGGGAAAGGGAGGACTCAATAG
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-tcttgtttctagtatgtt-acacaaaattctagtgctggtctgtggttatgattaatctatggtgaaataaca-gcatttctttctggcatgtcttttacagATGGCAGATCCTTTGACTGCTTTGATGTATGCAGTACAAGTCATGAATTTTCTCAAGACTCTTGTTGTGAAGGCATTGAGAGAAAGAGAGGAATCTATTG
upper sequence: Vv08s0007g03140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G35480.1 (Glycine max), 3'ss of exon 4
atcctcttttaaataaactcactgatgtttttcttattttgatatagttttg--tacattctggtcaatgtgaggtgcaatgatatcttctgttggttgcagATGGCAGATCCCTTGACAGCCTTGATGTATGCAGTCCAAGTGATGAATTTTCTCAAGACTTTGATAATCAGGACGCTTAGGGAAAGGGAGGACTCAATAG
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--gtgtgtgcaagttcctttaatcttgtttctagtgctgttctgtggttatgattaatctatggtgaaattacagcaattctttctcacgtgtctcctacagATGGCAGATCCTTTGACTGCTCTGATGTATGCAGTACAAGTCATGAATTTTCTCAAGACTCTTGTGGTGAAGACACTGAGAGAAAGAGAGGAATCTATTG
upper sequence: Vv08s0007g03140.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G08610.1 (Glycine max), 3'ss of exon 6
atcctcttttaaataaactcactgatgtttttcttattttgatatagtttt--gtacattctggtcaatgtgaggtgcaatgatatctt----ctgttggttgcagATGGCAGATCCCTTGACAGCCTTGATGTATGCAGTCCAAGTGATGAATTTTCTCAAGACTTTGATAATCAGGACGCTTAGGGAAAGGGAGGACTCAATAG
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-----gtcttgcaagactatagtatagtatgtggtactggtctaaggttatcaataaatattaatccacatttca-ataacaacatttctgacctgtatactacagATGGCAGATCCTTTGACGGCTTTGATGCATGTAGTACAAGTGATGAATTTTCTCAAGACCCTTGAGATGAAGACACTAAGAGAAAGAGAGGGGTCTACGGMapped 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|33403330|gb|CF208957.1|CF208957EST: AGATGAATGCACGCAATGTGGCTATGGTGTTTGCACCAAACATGACTCAA ATGGCAGATCCCTTGACAGCCTTGATGTATGCAGTCCAAGTGATGAATTTT
genomic: AGATGAATGCACGCAATGTGGCTATGGTGTTTGCACCAAACATGACTCAAgtgagtgagt ... ttggttgcagATGGCAGATCCCTTGACAGCCTTGATGTATGCAGTCCAAGTGATGAATTTT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttttgtacattctggtcaatgtgaggtgcaatgatatcttctgttggttgcagATGGCAGATCCCTTGACAGCCTTGATGTATGCAGTCCAAGTGATGAATTTTCTCAAGACTTTGATAATCAGGACGCTTAGGGAAAGGGAGGACTCAATAG
tcttctgtt CT-rich tract
aatgatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atcctcttttaaataaactcactgatgtttttcttattttgatatagttttgtacattctggtcaatgtgaggtgcaatgatatcttctgttggttgcagATGGCAGATCCCTTGACAGCCTTGATGTATGCAGTCCAAGTGATGAATTTTCTCAAGACTTTGATAATCAGGACGCTTAGGGAAAGGGAGGACTCAATAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - aaataaa
- - - - - - - - -ctcactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - cattctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcaatga