Sequence
atgc intronic sequence ATGC exonic sequence...atatttgtcagcatttaggctactcgacttgcttggtactaaaaggctttgttgttgttcggcaatgttagtggctaacgtgtcttgtttggttgagcagGTCATTGTAGTTTCAGGCGAGACTGGCTGTGGTAAGACGACACAACTACCACAGTACATTTTAGAATCTGAAATCGATGCTGCTCGTGGTGCTACGTGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA05G34180.1 (Glycine max), 3'ss of exon 5
atatttgtcagcatttaggctactcgacttgcttggta--ctaaaaggctttgttgttgttcggcaatgttagtggctaacgtgtcttgtttggttgagcagGTCATTGTAGTTTCAGGCGAGACTGGCTGTGGTAAGACGACACAACTACCACAGTACATTTTAGAATCTGAAATCGATGCTGCTCGTGGTGCTACGTGCA
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attttcttttgcaaatttatttcttgtcaagactatgagtctcaatatgtttgtgatgaatgaaaatttatattaagtg--gtatcataaatgaaattgcagGTCGTCGTTGTCTCAGGTGAAACTGGTTGTGGTAAGACCACACAACTTCCTCAATACATATTAGAATCTGAGATTGAAGCTGCACGTGGAGCTGTATGTA
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA08G05480.1 (Glycine max), 3'ss of exon 5
atatttgtcagcatttaggctactcgacttgcttggtactaaaaggctttgttgttgttcggcaatgt-tagtggctaacgtgtcttgtttggttgagcagGTCATTGTAGTTTCAGGCGAGACTGGCTGTGGTAAGACGACACAACTACCACAGTACATTTTAGAATCTGAAATCGATGCTGCTCGTGGTGCTACGTGCA
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-tcttttgcaaatttattttttgtcaagactattagtctcaatatgtttgtgtgctgaatgataatttatattaaagggtatcataaatgaaaatttgcagGTCGTTGTTGTCTCAGGTGAAACTGGTTGTGGTAAGACCACACAACTTCCTCAATACATATTAGAATCTGAGACTGAAGCGGCACGTGGAGCTGTATGTA
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 5
lower sequence: AT1G48650.2 (Arabidopsis thaliana), 3'ss of exon 5
-atatttgtcagcatttaggctactcgacttgcttggtactaaaaggctttgttgttgttcggcaatgttagtggctaacgtgtcttgtttggttgagcagGTCATTGTAGTTTCAGGCGAGACTGGCTGTGGTAAGACGACACAACTACCACAGTACATTTTAGAATCTGAAATCGATGCTGCTCGTGGTGCTACGTGCA
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gtgaaccgcaattcttccatttacttcatgtacata-tatcaactaatttc-taactgtttgacaccctgcgtgcctt-cgtgtgcctcctg------cagGTCGTAGTGGTTTCTGGAGAAACTGGATGTGGTAAAACAACACAGCTTCCTCAGTACATATTAGAATCTGAGATCGAGGCTGCCCGTGGAGCTACATGCA
upper sequence: GRMZM2G373175_T02 (Zea mays), 3'ss of exon 5
lower sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 4
atatttgtcagcatttaggctactcgacttgcttggtactaaaaggctttgttgttgttcggc--aatgttagtggctaacgtgtcttgtttggttgagcagGTCATTGTAGTTTCAGGCGAGACTGGCTGTGGTAAGACGACACAACTACCACAGTACATTTTAGAATCTGAAATCGATGCTGCTCGTGGTGCTACGTGCA
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cagattacgactatgctagtttcttagatgttattatatctagtgatggtgatattttcttatttaaaactgatgggt--tgtgtttctattaatttcacagGTGGTTGTAGTCTCAGGTGAAACTGGTTGTGGTAAGACCACACAACTCCCTCAGTACATTTTAGAATCTGAGATTGAAGCTGCTCGTGGAGCTTTCTGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gctttgttgttgttcggcaatgttagtggctaacgtgtcttgtttggttgagcagGTCATTGTAGTTTCAGGCGAGACTGGCTGTGGTAAGACGACACAACTACCACAGTACATTTTAGAATCTGAAATCGATGCTGCTCGTGGTGCTACGTGCA
ggctaac putative branch site (score: 2)
aatgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atatttgtcagcatttaggctactcgacttgcttggtactaaaaggctttgttgttgttcggcaatgttagtggctaacgtgtcttgtttggttgagcagGTCATTGTAGTTTCAGGCGAGACTGGCTGTGGTAAGACGACACAACTACCACAGTACATTTTAGAATCTGAAATCGATGCTGCTCGTGGTGCTACGTGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - gctactc
- - - - - - - - - - - - - - -tgcttgg
- - - - - - - - - - - - - - - - - - - - - - - - -tgttgtt