Sequence
atgc intronic sequence ATGC exonic sequencegtatgtacctttgcatctcacttgtgaaaactaactgacgaatatacacttccataatatcaccatggtggctgatgtcgtgttgtttctgtcagTTTGGTGAAGTTCTTAACACCTGCGTCTGGGCTCCAAGGGTACTGGGATCCTTACCCGATCGACATGGAGTTCCGACCGCCATGTATGGTCTTGTCGACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G038487_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os10g41760.1 (Oryza sativa), 3'ss of exon 7
gtatgtacctttgcatctcacttgtgaaaactaactgacgaatatacacttccataatatcaccatggtggctgatgtcgtgtt-gtttctgtcagTTTGGTGAAGTTCTTAACACCTGCGTCTGGGCTCCAAGGGTACTGGGATCCTTACCCGATCGACATGGAGTTCCGACCGCCATGTATGGTCTTGTCGACC
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gtatttacatacatatca-actaaggacaactggccattgaaaat---ttttcacaa-atcatcatg----ctgatgctatattcatctttgtcagCTTGGTGAAGTTCTTGACACCTGCATCTGGGCTCCAAGGGTACTGGGATCCTTACCCCATCGACATGGAGTTTCGACCGCCATGCATGGTCTTGTCAACC
upper sequence: GRMZM2G038487_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os10g41780.1 (Oryza sativa), 3'ss of exon 7
----------------------------gtatgtacctttgcatctcacttgt-gaaaactaactgacgaatatacacttccata-atatcaccatggtggctgatgtcgtgttgtttctgtcagTTTGGTGAAGTTCTTAACACCTGCGTCTGGGCTCCAAGGGTACTGGGATCCTTACCCGATCGACATGGAGTTCCGACCGCCATGTATGGTCTTGTCGACC
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gtatttacatacatatattttcacagccatgtggaattcttttttttttttttagaaaatggatagccatgtggaaatgtcttcagaaatcatcatg----ctgatgctatgttcatttc-ccagCTTGGTGAAGTTCTTGACACCTTCATCTGGGCTTCAAGGATACTGGGATCCATACCCGATCGACATGGAATTTCGACCACCATGCATGGTGTTGTCAACC
upper sequence: GRMZM2G038487_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA13G03430.1 (Glycine max), 3'ss of exon 7
------gtatgtacctttgcatctcac-ttgtgaaaactaactgacgaatatacacttccataatatcaccatggtggctgatgtcgtgttgtttctgtcagTTTGGTGAAGTTCTTAACACCTGCGTCTGGGCTCCAAGGGTACTGGGATCCTTACCCGATCGACATGGAGTTCCGACCGCCATGTATGGTCTTGTCGACC
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acttcagatttttgttatatgtcttaggctcttagctttatcttatgaaacaataaatttgtagc-tcactcagtctccttgcatgaatttgaacttg-cagCTTGGTGAATTTTTTGACACCTGCATCTGGCCTGCAAGGATACTGGGATCCCTATCCTATTGATATGGAGTTTCGACCACCTTGCATGGTACTATCAACC
upper sequence: GRMZM2G038487_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA14G23860.1 (Glycine max), 3'ss of exon 7
-------gta-tgtacctttgcatctcacttgtgaaaactaactgacgaatatacacttccataatatcaccatggtggctgatgtcgtgttgtttctgtcagTTTGGTGAAGTTCTTAACACCTGCGTCTGGGCTCCAAGGGTACTGGGATCCTTACCCGATCGACATGGAGTTCCGACCGCCATGTATGGTCTTGTCGACC
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taatggaatagttcagccttttgttaggctc-ttaactttatcttataaaacaataaatttctagc-tcactcagtctccttgcatgaatttgaacttg-cagCTTGGTGAATTTTTTGACACCTGCATCTGGCCTGCAAGGATACTGGGATCCCTATCCTATCGATATGGAGTTTCGACCACCCTGCATGGTACTATCAACC
upper sequence: GRMZM2G038487_T01 (Zea mays), 3'ss of exon 7
lower sequence: AT1G44446.2 (Arabidopsis thaliana), 3'ss of exon 7
gtatgtacctttgcatctcacttgtgaaaactaactgacgaatatacacttccataatatcaccatggtggctgatgtcgtgttgtttctgtcagTTTGGTGAAGTTCTTAACACCTGCGTCTGGGCTCCAAGGGTACTGGGATCCTTACCCGATCGACATGGAGTTCCGACCGCCATGTATGGTCTTGTCGACC
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--------------gtttctttt---aactctcattactc--tgttcagtgctaagatgaaacttggtttaagctttctgtttttggtactgcagTTTGGTGAAGTTTTTAACACCTACCTCGGGTCTCCAAGGATACTGGGATCCATATCCAATCGATATGGAATTTAAACCACCGTGTATTGTTTTATCGACA
upper sequence: GRMZM2G038487_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 6
gtatgtacctttgcatctcacttgtgaaaactaactgacgaatatacacttccataatatcaccatggtggctgatgtcgtgttgtttctgtcagTTTGGTGAAGTTCTTAACACCTGCGTCTGGGCTCCAAGGGTACTGGGATCCTTACCCGATCGACATGGAGTTCCGACCGCCATGTATGGTCTTGTCGACC
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gtttgttcctgtcaatattgcatttcatggttattttggagg---gcccatccagcttaa---------gttttgtattatctgaattct--cagCTTGGTAAAATTCTTGACACCTGCATCTGGACTCCAAGGATACTGGGATCCCTACCCCATAGATATGGAATTTCGACCACCTTGTATGGTGCTGTCAACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatatacacttccataatatcaccatggtggctgatgtcgtgttgtttctgtcagTTTGGTGAAGTTCTTAACACCTGCGTCTGGGCTCCAAGGGTACTGGGATCCTTACCCGATCGACATGGAGTTCCGACCGCCATGTATGGTCTTGTCGACC
ggctgat putative branch site (score: 4)
ttgtttct putative PPT
ataatatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtacctttgcatctcacttgtgaaaactaactgacgaatatacacttccataatatcaccatggtggctgatgtcgtgttgtttctgtcagTTTGGTGAAGTTCTTAACACCTGCGTCTGGGCTCCAAGGGTACTGGGATCCTTACCCGATCGACATGGAGTTCCGACCGCCATGTATGGTCTTGTCGACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA