Sequence
atgc intronic sequence ATGC exonic sequencegtaattcttcttcttcagagctaattttttcatgcatcatctatcccaaaagcttaaacttttaggtggagacacatgaacggttttatattacaattctaacagttttatgttctacattgtgttctcgttacatcagttgacactaattttatttggtatgtgaacagTCTAGAGTAGTCCAATGCAATGAAGGGGAAAGATCATATCATATATTTTATCAGCTATGTGCTGGTGCACCTCCATCTCTCAGGG
Basic information
species | Glycine max |
transcript | GLYMA20G00320.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G139583_T02 (Zea mays), 3'ss of exon 8
gtaattcttcttcttcagagctaattttttcatgcatcatctatcccaaaagcttaaacttttaggtggagacacatgaacggttttatattacaattctaacagttttatgttctacattgtgttctcgttacatcagttgacactaattttatttggt---atgtgaacagTCTAGAGTAGTCCAATGCAATGAAGGGGAAAGATCATATCATATATTTTATCAGCTATGTGCTGGTGCACCTCCATCTCTCAGGG
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-------------------------------------------------------------------------------------gtaacttctaatcttatg---tttgtccttagaaaaatggtagtgtttcactagtctaatatgccttttttcactttcattacggcagTCCAGAGTTGTGCAATGTGCAGTTGGTGAACGATCGTACCATATATTTTATCAGCTGTGTGCTGGTGCACCTGCATCTCTAAGAG
upper sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 9
lower sequence: GRMZM2G113202_T01 (Zea mays), 3'ss of exon 8
gtaattcttcttcttcagagctaattttttcatgcatcatctatcccaaaagcttaaacttttaggtggagacacatgaacggttttatattacaattctaacagttttatgttctacattgtgttctcgttacatcagttgacactaattttatttggtatgtgaacagTCTAGAGTAGTCCAATGCAATGAAGGGGAAAGATCATATCATATATTTTATCAGCTATGTGCTGGTGCACCTCCATCTCTCAGGG
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--------------------------------------------------------------------gtaacttctaa----tcttatgtt-tgtccttagaaaaatggactactatattgtttcacagcta--ttagtctaatatgccttt-tttaccacg---gcagTCCAGAGTTGTGCAATGTGCAGTTGGTGAGCGATCATACCATATATTTTATCAGCTGTGCGCTGGTGCACCTGCCTCTCTAAAAG
upper sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 9
lower sequence: AT3G19960.2 (Arabidopsis thaliana), 3'ss of exon 10
gtaattcttcttcttcagagctaattttttcatgcatcatctatcccaaaagcttaaacttttaggtggagacacatgaacggttttatattacaattctaacagttttatgttctacattgtgttctcgttacatcagttgacactaattttatttgg---tatgtgaacagTCTAGAGTAGTCCAATGCAATGAAGGGGAAAGATCATATCATATATTTTATCAGCTATGTGCTGGTGCACCTCCATCTCTCAGGG
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-----------------------------------------------------------------gtagcttc-tttggatgattttat-ttgc----ttgatttctttcctttttaaac-atgattcattaacattgacattttttctttgtatgttgactcattttaacagTCTAGAGTGGTCCAATGTGCTGAAGGGGAAAGGTCATATCATATTTTTTATCAACTTTGTGCTGGGGCTTCACCTGCACTTAGAG
upper sequence: GLYMA20G00320.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv10s0071g00210.t01 (Vitis vinifera), 3'ss of exon 8
gtaattcttcttcttcagagctaattttttcatgcatcatctatcccaaaagcttaaacttttaggtggagacacatgaacggttttatattacaattctaacagttttatgttctacattgtgttctcgttacatcagttgacactaattttatttggtatgtgaacagTCTAGAGTAGTCCAATGCAATGAAGGGGAAAGATCATATCATATATTTTATCAGCTATGTGCTGGTGCACCTCCATCTCTCAGGG
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-------------------------------------------------------------------------------gtaattctttctt-tatctgtatctattgtttggtctgtttgattttctcata--atgggttg---ttaattgtgtctcttttatgaacagTCTAGAGTGGTCCAATGTGCAGAAGGAGAGAGGTCATATCATATATTTTATCAACTCTGTGCTGGAGCTCCACCAGCTCTTAGAGMapped 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|105633926|gb|DW247289.1|DW247289EST: TATTCAAACTTTTTTGCTTGAAAAG TCTAGAGTAGTCCAATGCAATGAAGGGGAAAGATCATATCATATATTTTAT
genomic: TATTCAAACTTTTTTGCTTGAAAAGgtaattcttc ... atgtgaacagTCTAGAGTAGTCCAATGCAATGAAGGGGAAAGATCATATCATATATTTTAT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacattgtgttctcgttacatcagttgacactaattttatttggtatgtgaacagTCTAGAGTAGTCCAATGCAATGAAGGGGAAAGATCATATCATATATTTTATCAGCTATGTGCTGGTGCACCTCCATCTCTCAGGG
cactaat putative branch site (score: 2)
taattttatttggtat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattcttcttcttcagagctaattttttcatgcatcatctatcccaaaagcttaaacttttaggtggagacacatgaacggttttatattacaattctaacagttttatgttctacattgtgttctcgttacatcagttgacactaattttatttggtatgtgaacagTCTAGAGTAGTCCAATGCAATGAAGGGGAAAGATCATATCATATATTTTATCAGCTATGTGCTGGTGCACCTCCATCTCTCAGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT