Sequence
atgc intronic sequence ATGC exonic sequence...caatagaaatagtcccgatatgtaaggccaaacattccacaagtttgtgtttaatgaatctatgtatccaatgtggatactaatatttaacttctcatagGTTCCAACAAAACTTGGTCCAATACCAAAATTTGATTACAAGGTCAATGTATGACAAACAACTGGACAGTGGAAAGGGTACACTTCTCCATTTATGTGAT
Basic information
species | Glycine max |
transcript | GLYMA16G26360.1 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G26360.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os11g32490.1 (Oryza sativa), 3'ss of exon 11
--------------------caatagaaatagtcccgatatgtaaggccaaacattccacaagtttgt-gtttaatga----atctatgtatccaatgt---ggatact---aatatttaacttctc----atagGTTCCAACAAAACTTGGTCCAATACCAAAATTTGATTACAAGGTCAATGTATGACAAACAACTGGACAGTGGAAAGGGTACACTTCTCCATTTATGTGAT
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gtaagtggttaaacttatcatagtacaattatttcttaaacattagattcagttcggtatatatcagttgtataccgacatggtctat-tacacgatgttatgcttaccgagaatttttatctcttgtcaaacagATTTCAGGCCAATATGGTGTCTTACCAGAATTTGATTACAAAATCGATGTATGATAAACAGCTTGACAGTGGGAAAGGAACACTTCTGCATTTGTGTGAT
upper sequence: GLYMA16G26360.1 (Glycine max), 3'ss of exon 11
lower sequence: LOC_Os01g70390.1 (Oryza sativa), 3'ss of exon 11
caatagaaatagtcccgatatgtaaggccaaacattccacaagtttgtgtttaatgaatctat-gtatccaatgtggatactaa-tatttaacttctcat--agGTTCCAACAAAACTTGGTCCAATACCAAAATTTGATTACAAGGTCAATGTATGACAAACAACTGGACAGTGGAAAGGGTACACTTCTCCATTTATGTGAT
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---cttccctgattccttca-gcattttcttatttatgatgatactttatttgctgtattggttgtattggacaaatttggtaaataagctacctttgattcagGTTTCAACAGAACATGGCAACATATCAAAACCTAATAACTCAATCAATGTATGACAAACAGCTAGATAGTGGGAAAGGCACACTTCTCCATCTCTGTGAT
upper sequence: GLYMA16G26360.1 (Glycine max), 3'ss of exon 11
lower sequence: GRMZM2G527387_T01 (Zea mays), 3'ss of exon 11
----------------------------------------------------------------------caatagaaatagtcccgatatgtaaggccaaacattccacaagtttgtgtttaatgaatctatgtatccaatgtggatactaatatttaacttctc---atagGTTCCAACAAAACTTGGTCCAATACCAAAATTTGATTACAAGGTCAATGTATGACAAACAACTGGACAGTGGAAAGGGTACACTTCTCCATTTATGTGAT
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gtaagtgattcaattcataataatacccaactaaaaaaattctcttgctaatatgtcactttataagtatcactaatatatgtctgaactcgtaaggcaaga-atattacctctaacaatttggtcaaattcctggtaaaagactaatgatgggtttctgtctttccaaacagATTCCAAGCAAACATGGTCCAATACCAAAACTTGATTACAAAGTCGATGTATGATAAGCAGCTTGATAGTGGGAGAGGAACACTCCTCCACTTGTGCGATMapped 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|193514355|gb|FK467885.1|FK467885EST: GGTGCCGTTCTCTCTACAGTACTTGGATATTTGGCCAAGACATACTTCAC GTTCCAACAAAACTTGGTCCAATACCAAAATTTGATTACAAGGTCAATGTA
genomic: GGTGCCGTTCTCTCTACAGTACTTGGATATTTGGCCAAGACATACTTCACgtaagcatgt ... cttctcatagGTTCCAACAAAACTTGGTCCAATACCAAAATTTGATTACAAGGTCAATGTA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgtttaatgaatctatgtatccaatgtggatactaatatttaacttctcatagGTTCCAACAAAACTTGGTCCAATACCAAAATTTGATTACAAGGTCAATGTATGACAAACAACTGGACAGTGGAAAGGGTACACTTCTCCATTTATGTGAT
cttctcat CT-rich tract
atactaatatttaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
caatagaaatagtcccgatatgtaaggccaaacattccacaagtttgtgtttaatgaatctatgtatccaatgtggatactaatatttaacttctcatagGTTCCAACAAAACTTGGTCCAATACCAAAATTTGATTACAAGGTCAATGTATGACAAACAACTGGACAGTGGAAAGGGTACACTTCTCCATTTATGTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGTGGA
-aatagaaa
- - - - - - - - - - - - - -ccaaaca
- - - - - - - - - - - - - - - - - - ccacaag
- - - - - - - - - - - - - - - - - - - - - -tttgtgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctatgta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaatgt