Sequence
atgc intronic sequence ATGC exonic sequence...tagtatcggaaagcataggttgcgttactcttgcaattgtttacaggtgaattgtcttgtcatatataggattgatggtttctgatttccaaattaatagGTAGCTGCTACTCCAGATTTAATGCTGGGTTATTTAGATTTCTTCCTTGGTGGGGATGAGAAAAGGACTGATCTTCCTCCTCGGCTTCATCAAAGGTTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G350818_T01 (Zea mays), 3'ss of exon 9
lower sequence: LOC_Os05g09360.1 (Oryza sativa), 3'ss of exon 14
tagtatcggaaagcataggttgcgttactcttgcaattgtttaca-ggtgaattgtcttgtcatatataggattga----tggtttctgatttccaaattaatagGTAGCTGCTACTCCAGATTTAATGCTGGGTTATTTAGATTTCTTCCTTGGTGGGGATGAGAAAAGGACTGATCTTCCTCCTCGGCTTCATCAAAGGTTTC
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-----tacaagaaccagaactgcacttgtattatgaatttttatacaattatcagtctcatcacatcatggattgaggtatgctttctggttttccatttgatagGTTGCTGCTACACCAGATTTAATGCTGGGTTATTTAGATTTCTTTCTTGGTGGGGATGAAAAAAGGCCTGACCTCCCCCCTCGTCTTCATCAAAGGTTGC
upper sequence: GRMZM2G350818_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA08G03550.1 (Glycine max), 3'ss of exon 18
tagtatcggaaagcataggttgcgttactcttgcaattgtttacaggt--gaattgtcttgtcatatataggattgatggtttctgatttccaaatta--atagGTAGCTGCTACTCCAGATTTAATGCTGGGTTATTTAGATTTCTTCCTTGGTGGGGATGAGAAAAGGACTGATCTTCCTCCTCGGCTTCATCAAAGGTTTC
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---tcttctttttttttttttgctttattctttcactctaccaaatgtagggactatcatttattagaatcattcaatggttacttact-ctatcttgctacagGTAGGTGCAACATCTGATCTGATGCTAGCATATCTGGATTTCTTCCTTGGTGGAGATGAGAAAAGACCTGATCTGCCTCCTCGTCTTTATCAAAGATTTC
upper sequence: GRMZM2G350818_T01 (Zea mays), 3'ss of exon 9
lower sequence: GLYMA05G36070.2 (Glycine max), 3'ss of exon 17
-tagtatcggaaagcataggttgcgttactcttgcaattgtttacaggtg-aattgtcttgtcatatataggattgatggtttctgatttccaaat-taatagGTAGCTGCTACTCCAGATTTAATGCTGGGTTATTTAGATTTCTTCCTTGGTGGGGATGAGAAAAGGACTGATCTTCCTCCTCGGCTTCATCAAAGGTTTC
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ctaatgattccaactaactgttgcttcttgtttgggggggggggggggggcagattctttgatggatttttttttcttagtt---ggttttaacatgctacagGTAGCTGCAACATCTGATCTGATGCTGGGATATCTGGATTTCTTCCTTGGTGGGGATGAGAAAAGACCTGATCTGCCTCCTCGTCTTTATCAAAGATTTC
upper sequence: GRMZM2G350818_T01 (Zea mays), 3'ss of exon 9
lower sequence: AT4G32920.2 (Arabidopsis thaliana), 3'ss of exon 16
-tagtatcggaaagcataggttgcgttactcttgcaattgtttacaggtgaattgtcttgtcatatataggattgatggtttctgatttccaaattaatagGTAGCTGCTACTCCAGATTTAATGCTGGGTTATTTAGATTTCTTCCTTGGTGGGGATGAGAAAAGGACTGATCTTCCTCCTCGGCTTCATCAAAGGTTTC
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ttggtgcttgtgttcttgaaaacaaggctccatttcattgtttacagatggcaagaaaaaggat-tgtagtatatgaatcatgagaatttgtgctgtgcagGTAGCTGCTACTCCTGATTTGATGTTAGCTCATCTAGATTTCTTCCTTGGTGGCGATGAAAAGAGAAGCGATCTTCCTCCTCAGGTTCATCAAAGACTTC
upper sequence: GRMZM2G350818_T01 (Zea mays), 3'ss of exon 9
lower sequence: AT5G11700.1 (Arabidopsis thaliana), 3'ss of exon 16
----tagtatcggaaagcatagg----ttgcgttactcttgcaattgtttacaggtgaattgtcttgtcatatataggattgatggtttctgatttccaaattaatagGTAGCTGCTACTCCAGATTTAATGCTGGGTTATTTAGATTTCTTCCTTGGTGGGGATGAGAAAAGGACTGATCTTCCTCCTCGGCTTCATCAAAGGTTTC
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gtaacaggactacacattttgagaatatctaattccgtttacaaggatttgttggtgtaaggtttagt-atatatat-atatatatatatttatttt--aat--atagGTCGCTGCAACCTCCGATTTGATGCTTGCGTATCTGGATTTCTTCCTTGGTGGGGATGAAAAAAGGACAGACCTTCCACCTCGACTTCACCAAAGGTTTCMapped 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|67015716|gb|CO444465.1|CO444465EST: ATTCATGTTTACGGTCCTGCCGTTCGCGTGCACTTTACGAGGGGCTAAAG GTAGCTGCTACTCCAGATTTAATGCTGGGTTATTTAGATTTCTTCCTTGGT
genomic: ATTCATGTTTACGGTCCTGCCGTTCGCGTGCACTTTACGAGGGGCTAAAGgtatgtatct ... aaattaatagGTAGCTGCTACTCCAGATTTAATGCTGGGTTATTTAGATTTCTTCCTTGGT
EST:
gi|31348714|gb|CD433071.1|CD433071EST: ATTCATGTTTACGGTCCTGCCGTTCGCGTGCACTTTACGAGGGGCTAAAG GTAGCTGCTACTCCAGATTTAATGCTGGGTTATTTAGATTTCTTCCTTGGT
genomic: ATTCATGTTTACGGTCCTGCCGTTCGCGTGCACTTTACGAGGGGCTAAAGgtatgtatct ... aaattaatagGTAGCTGCTACTCCAGATTTAATGCTGGGTTATTTAGATTTCTTCCTTGGT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggtgaattgtcttgtcatatataggattgatggtttctgatttccaaattaatagGTAGCTGCTACTCCAGATTTAATGCTGGGTTATTTAGATTTCTTCCTTGGTGGGGATGAGAAAAGGACTGATCTTCCTCCTCGGCTTCATCAAAGGTTTC
ttctgat putative branch site (score: 3)
atttccaaattaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tagtatcggaaagcataggttgcgttactcttgcaattgtttacaggtgaattgtcttgtcatatataggattgatggtttctgatttccaaattaatagGTAGCTGCTACTCCAGATTTAATGCTGGGTTATTTAGATTTCTTCCTTGGTGGGGATGAGAAAAGGACTGATCTTCCTCCTCGGCTTCATCAAAGGTTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC
- - - - - - - - - - - - - - tcttgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - attgatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tttctga