Sequence
atgc intronic sequence ATGC exonic sequence...gtgaaatatatcttgttacttctttattactattccgtacaacattagctcgttttgtttctatttcttgaccaagacatggttgttgttctgatggcagATTTGAACCTGACATGCTTGCCTTTTCTGGGTGCTATTATGGTGGTGGAGAAAAGGAGAGGAGAGAATTAGCTGCAATTCGCAGACGATGGAGAACCTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G168614_T01 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os09g37590.1 (Oryza sativa), 3'ss of exon 10
--gtgaaatatatcttgttacttctttattac-tattccgtacaacattagctcgttttgtttctatttcttgaccaagacatggttgttgttctgatggcagATTTGAACCTGACATGCTTGCCTTTTCTGGGTGCTATTATGGTGGTGGAGAAAAGGAGAGGAGAGAATTAGCTGCAATTCGCAGACGATGGAGAACCTTG
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aagtagagactaaaataacatttcatatgtacactcttcctcttgcacta---tgcatcattttgctctttttttcagcatgcaccgtctatcctgatggcagGTTTGAACCTGACATGCTTGCCTTTTCTGGGTGTTATTATGGTGGTGGAGAAAAGGAGAAAAGAGAACTAGGCTCCATTCGCAAGCGATGGAAAACTTTG
upper sequence: GRMZM2G168614_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA06G02110.1 (Glycine max), 3'ss of exon 6
-gtgaaatatatcttgttacttctttattactattccgtaca-acattagctcgttttgtttctatttcttgaccaagacatggttgt-tgttctgatggcagATTTGAACCTGACATGCTTGCCTTTTCTGGGTGCTATTATGGTGGTGGAGAAAAGGAGAGGAGAGAATTAGCTGCAATTCGCAGACGATGGAGAACCTTG
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aatggcttttatacttttacattcaagatgcagttaaataggtagaataacagatgacaagtgaataattt--ctaaaat-tgattgcctttttttgctacagATTTGAACCTGATATGCTTGCATTTTCTGGATGTGATTATGGTGGAGGGGAGAAGGAGCAGAAGGAACTGGGTGCAATAAGGAGGAGGTGGAAGACATTA
upper sequence: GRMZM2G168614_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA02G48050.1 (Glycine max), 3'ss of exon 6
--------------------------------------------------------------------------------gtgaaatatatcttgttacttc--tttattactattccgtac----aacattagctcgttttgtttc-tatttcttgaccaag----acatggtt------gttgttctgatg-gcagATTTGAACCTGACATGCTTGCCTTTTCTGGGTGCTATTATGGTGGTGGAGAAAAGGAGAGGAGAGAATTAGCTGCAATTCGCAGACGATGGAGAACCTTG
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gtaagctttatttctggttcctttactttgccatttagttcctcaacaaagaatgcagtatatatgcagcattcgtgatcatcagcttcattaagttacagaaattaactcgcattttgtaattgagacgtaagctaagttcttttcatgattcatattgaagttcaacgtgattcaaactgatgttttatcacatagGTTTGAACCGGATATGCTTGCATTCTCTGGTTGCTATTACGGCGGTGGAGAAAAAGAGAAAAAGGAACTTGGCGAAATTAGGAAACGGTGGAAAAATTTA
upper sequence: GRMZM2G168614_T01 (Zea mays), 3'ss of exon 6
lower sequence: GLYMA04G02010.1 (Glycine max), 3'ss of exon 7
-gtgaaatatatcttgttacttctttattactattccgtaca-acattagctcgttttgtttctatttcttgaccaagacatggttgt-tgttctgatggcagATTTGAACCTGACATGCTTGCCTTTTCTGGGTGCTATTATGGTGGTGGAGAAAAGGAGAGGAGAGAATTAGCTGCAATTCGCAGACGATGGAGAACCTTG
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tgtggcttttacccttttgcattcaagatgcagttaaataggtagaataacggatgacaagtgaataattt--ctaaaat-tgattgcctttttttgctacagATTTGAACCTGATATGCTTGCATTTTCTGGATGTGATTATGGTGGAGGGGAGAAGGAGCAGAAGGAACTGGGTGCAATAAGAAGGAGGTGGAAGACATTA
upper sequence: GRMZM2G168614_T01 (Zea mays), 3'ss of exon 6
lower sequence: AT1G76270.1 (Arabidopsis thaliana), 3'ss of exon 6
gtgaaatatatcttgttacttctttattactattccgtacaacattagctcgttttgtttctat-----ttcttgaccaagacatg-gttgttgttctgatggcagATTTGAACCTGACATGCTTGCCTTTTCTGGGTGCTATTATGGTGGTGGAGAAAAGGAGAGGAGAGAATTAGCTGCAATTCGCAGACGATGGAGAACCTTG
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-----atttttgatatt-ctagtcaacaattatgatattttacatttacctcttgaatctctataaatactagtgtttgacgcaagtgatattgattgtgttgcagGTATGAACCTGATATGCTTGCATTCTCGGGATGCTATTATGGTGGTGGTGATAAGGAAAGGAGAGAACTTGCAGCAATTAGAAGGAGATGGAAAACATTA
upper sequence: GRMZM2G168614_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv03s0038g03240.t01 (Vitis vinifera), 3'ss of exon 7
-----------gtgaaatatatcttgttacttctttattactattccgtacaacattagctcgttttgtttctatttcttgaccaagacatggttgttgttctgatggcagATTTGAACCTGACATGCTTGCCTTTTCTGGGTGCTATTATGGTGGTGGAGAAAAGGAGAGGAGAGAATTAGCTGCAATTCGCAGACGATGGAGAACCTTG
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gtatatggtttttgaaatagggaaacttggtt-ttgattg-tattcca-gctgcattgaacagggttttcatggattttt--cttatggatgttcattgtcat------agGTTTGAACCTGATATGCTTGCATTCTCTGGATGCTATTATGGTGGAGGAGAAAAAGAAAGGACAGAACTGGGCGCATTAAGGAAGAGGTGGAAAACTTTA
upper sequence: GRMZM2G168614_T01 (Zea mays), 3'ss of exon 6
lower sequence: Vv18s0001g00100.t01 (Vitis vinifera), 3'ss of exon 7
gtgaaatatatcttgttacttctttattactattccgtacaacattagct-cgttttgtttctatttcttgaccaagacat-ggttgttgttctgatggcagATTTGAACCTGACATGCTTGCCTTTTCTGGGTGCTATTATGGTGGTGGAGAAAAGGAGAGGAGAGAATTAGCTGCAATTCGCAGACGATGGAGAACCTTG
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atgaacaagtcatggctatatgatt-ttaatattcaagaaactgccaattatgagaaggtgagaaagtttctttatgccatcagatgctttgttg-tcacagGTTTGAACCCGATATGCTTGCATTCTCAGGATGCTACTATGGTGGGGGAGAAAAGGAAAGGAAAGAGCTGGGTGCAATACGAAAGAGGTGGAAAACTTTAMapped 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|50322961|gb|CO518087.1|CO518087EST: ATACAACGAATGCGAGAAAAGAACAGATATTTTATTGCTCTTCACCTGAG ATTTGAACCTGACATGCTTGCCTTTTCTGGGTGCTATTATGGTGGTGGAGA
genomic: ATACAACGAATGCGAGAAAAGAACAGATATTTTATTGCTCTTCACCTGAGgttggttcgt ... ctgatggcagATTTGAACCTGACATGCTTGCCTTTTCTGGGTGCTATTATGGTGGTGGAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tagctcgttttgtttctatttcttgaccaagacatggttgttgttctgatggcagATTTGAACCTGACATGCTTGCCTTTTCTGGGTGCTATTATGGTGGTGGAGAAAAGGAGAGGAGAGAATTAGCTGCAATTCGCAGACGATGGAGAACCTTG
ttctgat putative branch site (score: 3)
ttgttct CT-rich tract
ttttgtttctattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaaatatatcttgttacttctttattactattccgtacaacattagctcgttttgtttctatttcttgaccaagacatggttgttgttctgatggcagATTTGAACCTGACATGCTTGCCTTTTCTGGGTGCTATTATGGTGGTGGAGAAAAGGAGAGGAGAGAATTAGCTGCAATTCGCAGACGATGGAGAACCTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA