Sequence
atgc intronic sequence ATGC exonic sequencegtgtatttatgcacataaactaccatgccttttatctatgtaacttgcatttttatctaatcttgtttgatattttttccccttttgtgttttttttatatgtgtacttatgattttggttggcattgattggaattctggaatgcccttttaatggtctgattttgctggagacgtgcagATATTTATTCAAACCGGATATCCTCTTGATTTGCCTTCTGGAAGTTTAGGAAGTTACTGCATTTACGAATATCATATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G061419_T01 (Zea mays), 3'ss of exon 6
gtgtatttatgcacataaactaccatgccttttatctatgtaacttgcatttttatctaatcttgtttgatattttttccccttttgtgttttttttatatgtgtacttatgattttggttggcattgattggaattctggaatgcccttttaatggtctgattttgctggagacgtgcagATATTTATTCAAACCGGATATCCTCTTGATTTGCCTTCTGGAAGTTTAGGAAGTTACTGCATTTACGAATATCATATG
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-------------------------------------------------------------------------------------------------gtctgctttttcgtgaacccccctcccttcttctattgccctcg--ctgcattaacattgtatgcttttgt----gcctggcagATATTTATACAAACTGGATATCCCCTTGACTTACCTTCTGGCAGTTTGGGCAGCTATTGCATATATGAATACCACATG
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G127754_T01 (Zea mays), 3'ss of exon 1
gtgtatttatgcacataaactaccatgccttttatctatgtaacttgcatttttatctaatcttgtttgatattttttccccttttgtgttttttttatatgtgtacttatgattttggttggcattgattggaattctggaatgcccttttaatggtctgattttgctggagacgtgcagATATTTATTCAAACCGGATATCCTCTTGATTTGCCTTCTGGAAGTTTAGGAAGTTACTGCATTTACGAATATCATATG
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----------------------------------------------------------------------------------------gtctgtttttt-cgtgaacccttcctcccttcttctattgcccttgcttcattaacatcct----atgctttgtcgttg----------gcagATATTTATACAAACTGGATATCCCCTTGAGTTACCTTCTGGCAGTTTGGGCAGCTATTGCATATATGAATACCACATG
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA16G08510.1 (Glycine max), 3'ss of exon 5
gtgtatttatgcacataaactaccatgccttttatctatgtaacttgcatttttatctaatcttgtttgatattttttccccttttgtgttttttttatatgtgtacttatgattttggttggcattgattggaattctggaatgcccttttaatggtctgattttgctggagacgtgcagATATTTATTCAAACCGGATATCCTCTTGATTTGCCTTCTGGAAGTTTAGGAAGTTACTGCATTTACGAATATCATATG
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-------------------------------------gtatagcttaaaagaatttgttttcttgt-----ggttgttttctttaggtgtttaattgaaatat----ttatagttccacttgcctaaaacc---atttggttacactctttcaactgtt--atcatgcttaa------cagATATTTATTCAAACCGGATACCCTCTTGATTTGCCTTCTGGAAGTCTAGGGAGTTACTGCATCTATGAATACCATATG
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA01G01130.1 (Glycine max), 3'ss of exon 5
gtgtatttatgcacataaactaccatgccttttatctatgtaacttgcatttttatctaatct-tgtttgatattttttccccttttgtgttttttttatatgtgtacttatgattttggttggcattgattggaattctggaatgcccttttaatggtctgattttgctggagacgtgcagATATTTATTCAAACCGGATATCCTCTTGATTTGCCTTCTGGAAGTTTAGGAAGTTACTGCATTTACGAATATCATATG
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--------------------------------------------gtatagcttaaaagaatttgttccttgtggttgttttctttaggtgtttaattgaaatat----ttatagttccacttgcctaaaacc---atttggttacactctttcaactgtt--atgatgcttaa------cagATATTTATTCAAACCGGATACCCTCTTGATTTGCCATCTGGAAGTCTAGGGAGTTACTGCATCTATGAATACCATATG
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G35860.1 (Glycine max), 3'ss of exon 5
gtgtatttatgcacataaactaccatgccttttatctatgtaacttgcatttttatctaatcttgtttgatattttttccccttttgtgttttttttatatgtgtacttatgattttggttggcattgattggaattctggaatgcccttttaatggtctgattttgctggagacgt-gcagATATTTATTCAAACCGGATATCCTCTTGATTTGCCTTCTGGAAGTTTAGGAAGTTACTGCATTTACGAATATCATATG
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-----------------------------------------------------------gtctaacttaaaatttgtttat-tgttgttctttttttaagtgattagttagaattat------tatggtttcacttccctgaattattttattatggtcttaactgctttgatgcttagcagATATTTATTCAAACTGGATACCCTCTTGATCTGCCATCTGGAAGCCTGGGAAGTTACTGCATCTATGAATACCATATG
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G03760.1 (Glycine max), 3'ss of exon 6
gtgtatttatgcacataaactaccatgccttttatctatgtaacttgcatttttatctaatcttgtttgatattttttccccttttgtgttttttttatatgtgtacttatgattttggttggcattgattggaattctggaatgcccttttaatggtctgattttgctggagacgt-gcagATATTTATTCAAACCGGATATCCTCTTGATTTGCCTTCTGGAAGTTTAGGAAGTTACTGCATTTACGAATATCATATG
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-----------------------------------------------------------gtctaacttaaaatttgttca----ttgttctttttttaagtgattaattagaattat------tatggtttcacttccctgaattattttattatggtcttaactgctttgatgcttagcagATATTTATTCAAACTGGATACCCTCTCGATCTGCCATCTGGAAGCCTGGGAAGTTACTGCATCTATGAATACCATATG
upper sequence: Vv11s0016g03130.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT2G19880.1 (Arabidopsis thaliana), 3'ss of exon 6
gtgtatttatgcacataaactaccatgccttttatctatgtaacttgcatttttatctaatcttgtttgatattttttccccttttgtgttttttttatatgtgtacttatgattttggttggcattgattggaattctggaatgcccttttaatggtctgattttgctggagacgtgcagATATTTATTCAAACCGGATATCCTCTTGATTTGCCTTCTGGAAGTTTAGGAAGTTACTGCATTTACGAATATCATATG
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----------------------------gtggtacccaaactacagaaatcctgaactaat-tggcttaattctgtgtctgtttacat----ttatcaaagacatagctaaggataggcccttaattatctttccttctg---tctgaatttgtttaacagatatag-tgatttcttgcagATATTTATTCAAACTGGGTATCCTCTAGACTTGCCGTCTGGGACTCTTGGGAGTTATTGCATCTATGAGTACCACATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgattggaattctggaatgcccttttaatggtctgattttgctggagacgtgcagATATTTATTCAAACCGGATATCCTCTTGATTTGCCTTCTGGAAGTTTAGGAAGTTACTGCATTTACGAATATCATATG
ttttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtatttatgcacataaactaccatgccttttatctatgtaacttgcatttttatctaatcttgtttgatattttttccccttttgtgttttttttatatgtgtacttatgattttggttggcattgattggaattctggaatgcccttttaatggtctgattttgctggagacgtgcagATATTTATTCAAACCGGATATCCTCTTGATTTGCCTTCTGGAAGTTTAGGAAGTTACTGCATTTACGAATATCATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG