Sequence
atgc intronic sequence ATGC exonic sequencegtatgctcttgcatgaattctctgatgataatttgaaagtttgaatcatatatctgatctacaaactacctacagcagtgtactaacaattgcacatttatgtcaatagTGTAGCATTGATGGTTTGTTGGAGAAGACGGTTAAGCACATGCTTTTCTTACAAAGTGTGACGAAGAATGCAGACAAGCTCAAGGACTCTACCGAGTCTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G158281_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os11g06010.1 (Oryza sativa), 3'ss of exon 6
------------gtatgctcttg--catgaatt-ctctgatgataatttgaaagtttgaatcatatatctgatctacaaactacctacagcagtgta---ctaacaattg----cacatttatgtcaatagTGTAGCATTGATGGTTTGTTGGAGAAGACGGTTAAGCACATGCTTTTCTTACAAAGTGTGACGAAGAATGCAGACAAGCTCAAGGACTCTACCGAGTCTA
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gtatcctctaatgaatctttctggttttaaataactttcatggtaatttgcac-tttatatagcatatttgaacttaagagcaatttttgcaatgttgacttgttaattgtgatcgcatttttttcaacagTGTAGCATCGATGCCTTGCTGGAGAAGACAGTTAAGCACATGCTTTTCTTGCAAAGTGTGACGAAGCATGCAGACAAGCTCAAGGATTCTACTGAATCCA
upper sequence: GRMZM2G158281_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA12G31460.2 (Glycine max), 3'ss of exon 9
gtatgctcttgcatgaattctc--tgatgataatttgaaagtttgaatcatatatctgatctacaaactacctacagcagtgtactaacaattgcacatttatgtcaatagTGTAGCATTGATGGTTTGTTGGAGAAGACGGTTAAGCACATGCTTTTCTTACAAAGTGTGACGAAGAATGCAGACAAGCTCAAGGACTCTACCGAGTCTA
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gtatttccttgtttattctttcattcctaattttttggtaatttaaatatcttgttctgtcactgagttgttttt-----ttttctttgatctctttttatgacttgacagTGTAGCATAGATGCACTTTTGGAACGGACCATTAAGCATATGCTTTTCTTACAAAGTGTGACAAAGCATGCTGACAAGCTGAAACAAACAGGGGAGTCTA
upper sequence: GRMZM2G158281_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv06s0009g00440.t01 (Vitis vinifera), 3'ss of exon 6
gta--tgctcttgcatgaattctctgatgataatttgaaagt-ttgaatcatatatctgatctacaaactacctacagcagtgtactaacaattgcacatttatgtcaatagTGTAGCATTGATGGTTTGTTGGAGAAGACGGTTAAGCACATGCTTTTCTTACAAAGTGTGACGAAGAATGCAGACAAGCTCAAGGACTCTACCGAGTCTA
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gtaactcatctttcttcctttcttcctcacttttttgaggacattttactatat---tgagatactgattatgtcctctaatctactgatg----------tggtttaacagTGTAGCATTGATGCACTGCTTGAACGCACCATCAAGCATATGCTTTTCTTGCAAAGTGTCATGAAGCATGCAGACAAGCTAAAGCAAACTGGAGAGTCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatctacaaactacctacagcagtgtactaacaattgcacatttatgtcaatagTGTAGCATTGATGGTTTGTTGGAGAAGACGGTTAAGCACATGCTTTTCTTACAAAGTGTGACGAAGAATGCAGACAAGCTCAAGGACTCTACCGAGTCTA
tactaac putative branch site (score: 0)
taacaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgctcttgcatgaattctctgatgataatttgaaagtttgaatcatatatctgatctacaaactacctacagcagtgtactaacaattgcacatttatgtcaatagTGTAGCATTGATGGTTTGTTGGAGAAGACGGTTAAGCACATGCTTTTCTTACAAAGTGTGACGAAGAATGCAGACAAGCTCAAGGACTCTACCGAGTCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA