Sequence
atgc intronic sequence ATGC exonic sequence...ttactgcacacatattactcgtccaataatttatcagtcataactaatgaatatattagtcaaactataaatttaatatggttttttctcctttttctagTGCTACATCAGGTGGTATTCTAGACAGAGCTATTGAAGCAGAGGACAGAAAGCATGGAGATTTCTTGAGGCTG
Basic information
species | Glycine max |
transcript | GLYMA06G46230.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G46230.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os02g06840.2 (Oryza sativa), 3'ss of exon 6
ttactgcacacatattactcgtccaataatttatcagtcataactaatgaat---atattagtcaa-actataaatttaata--tggttttttctcctttttctagTGCTACATCAGGTGGTATTCTAGACAGAGCTATTGAAGCAGAGGACAGAAAGCATGGAGATTTCTTGAGGCTG
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gtacaaagaacgtgttgcatttttcagtactcagtagtcatggttccttattttgattttggtttctgttattgacaaaacaactcactcattccatgtcttccagTGCTATATCAGGTGGAATTGTTGATAGAGCAATTGAAGCAGAGGACAGAAAACATGGTGACTTCATGAGAATT
upper sequence: GLYMA06G46230.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G132866_T02 (Zea mays), 3'ss of exon 4
--ttactgcacacatattactcgtccaa--taatttatcagtcataactaa---tgaatatattagtca-aactataaatttaatatggttttttctcc----tttttctagTGCTACATCAGGTGGTATTCTAGACAGAGCTATTGAAGCAGAGGACAGAAAGCATGGAGATTTCTTGAGGCTG
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gtttgatggaaacagactctgtggctatccttagttgacgtttacaacgagttctggatttactcgtttcaaccgtgaaagtaactcaccttaagctccacgtgccttgcagTGCTATATCAGGTGGAATTGTTGATAGAGCAATCGAAGCAGAGGACAGGAAGCATGGGGATTTCATGAGGATA
upper sequence: GLYMA06G46230.2 (Glycine max), 3'ss of exon 5
lower sequence: AT2G32430.1 (Arabidopsis thaliana), 3'ss of exon 5
---------------ttactgcacacatattactcgtccaataatttatcag--tcataactaatgaat-atattagtcaaactataaatttaatatggttttttctcctttttctagTGCTACATCAGGTGGTATTCTAGACAGAGCTATTGAAGCAGAGGACAGAAAGCATGGAGATTTCTTGAGGCTG
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gtgagagtttgaatcttttagtata-atgtcagatatcgaatcaaccacaatgttcttacatagtttctgagatgattcatact-cagtgttaattttatttggcattggttctttagTGCCACGGCTGGCGGAATTCTAGACCGATCCATTGAAGCAGAGGACAAGAAGCATGGAGATTTCTTGAGATTG
upper sequence: GLYMA06G46230.2 (Glycine max), 3'ss of exon 5
lower sequence: AT1G05170.2 (Arabidopsis thaliana), 3'ss of exon 5
ttactgcacacatattactcgtccaataat-ttatcagtcataactaatgaatatattagtcaaactataaatttaatatggttttttctcctttttcta--gTGCTACATCAGGTGGTATTCTAGACAGAGCTATTGAAGCAGAGGACAGAAAGCATGGAGATTTCTTGAGGCTG
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--------------------gtgaagttttgttttctttagtttctgatgtgagtttcattttggttctctgtatactgatgatgtgtgtcattgttctatagTGCCACGACCGGGGGAATTCTAGATCGAGCTATAGAAGCTGAGGACAGGAAGCATGGAGATTTCTTGAGACTG
upper sequence: GLYMA06G46230.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv12s0059g00640.t01 (Vitis vinifera), 3'ss of exon 5
-------ttactgcacacatattactcgtcc-aataatttatcagtcataactaatgaatatattagtcaaactataaatttaatatggttttttctcctttttctagTGCTACATCAGGTGGTATTCTAGACAGAGCTATTGAAGCAGAGGACAGAAAGCATGGAGATTTCTTGAGGCTG
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ccttgtgttaccaacaactaatagatcatttgaataac--atgaatatgagatgataagtttattg--catactattaatcaacc----ttttgttttcatcactcagTGCCACATCAGGGGGTATACTGGACAGAGCTATCGAAGCAGAGGACAAAAAACATGGAGACTTCTTGAGGCTGMapped 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|10843671|gb|BF066945.1|BF066945EST: TAGAAGCTAGAGGAGAAGGGCATTATCATGCCCTTTGTAATTGGACACAG TGCTACATCAGGGTG-TATTCTAGACAGAGCTATTGA-GCAAAAGGACAGA
genomic: AAGAAGCTAGAGGAGAAGGGCATTATCATGCGCTTTGTAATTGGACACAGgtagctatgc ... ctttttctagTGCTACATCAGG-TGGTATTCTAGACAGAGCTATTGAAGCAGA-GGACAGA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgaatatattagtcaaactataaatttaatatggttttttctcctttttctagTGCTACATCAGGTGGTATTCTAGACAGAGCTATTGAAGCAGAGGACAGAAAGCATGGAGATTTCTTGAGGCTG
tatggttttttctcct CT-rich tract
atatattagtcaaact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttactgcacacatattactcgtccaataatttatcagtcataactaatgaatatattagtcaaactataaatttaatatggttttttctcctttttctagTGCTACATCAGGTGGTATTCTAGACAGAGCTATTGAAGCAGAGGACAGAAAGCATGGAGATTTCTTGAGGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT