Sequence
atgc intronic sequence ATGC exonic sequence...gcttctcactttaaaatttgtaggaaaataagaacaggatttgtttataattggtttcagctgttggattgagataatttttttgtgaaatataatacagGCTGGGTTTGCTGGGATTGGAGTTGGTGCTGCTTACTATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG
Basic information
species | Glycine max |
transcript | GLYMA14G02380.2 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G02380.2 (Glycine max), 3'ss of exon 5
lower sequence: LOC_Os08g42410.2 (Oryza sativa), 3'ss of exon 3
gcttctcactttaaaatttgtaggaaaataagaacagg-atttgtttataattggtttca-gctgttggattgagataatttttttgtgaaatataatacagGCTGGGTTTGCTGGGATTGGAGTTGGTGCTGCTTACTATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG
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-gtgatactcttaaaccttctgagtgaccgctggtgtccactcataagcagctagagtgacgcagtcacattgaagtactgatatgtttgcattctgttcagGCTGGTTTTACTGGAATTGGTGTTGGTGCTGCCTATCAAGGTCTTCGCCCTGTGGTTGAGTTCATGACATTTAACTTCTCTATGCAG
upper sequence: GLYMA14G02380.2 (Glycine max), 3'ss of exon 5
lower sequence: GRMZM2G097226_T02 (Zea mays), 3'ss of exon 5
gcttctcactttaaaatttgtaggaaaataagaacaggatttgtttataattggtttcagctgttggattgagataatttttttgtgaaatataatacagGCTGGGTTTGCTGGGATTGGAGTTGGTGCTGCTTACTATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG
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---gtgcacattaaaatcctgaaaccattgctttcaggctgtgtaaaca--tgataacaaaggcacacacttactgctttctctgtttaccct----cagGCTGGTTTTACTGGCATTGGTGTTGGTGCAGCTTATCATGGTCTTCGGCCTATTATAGAGTTTATGACATTTAATTTCTCGATGCAG
upper sequence: GLYMA14G02380.2 (Glycine max), 3'ss of exon 5
lower sequence: AT5G50850.1 (Arabidopsis thaliana), 3'ss of exon 6
------gcttctcactttaaaatttgtaggaaaataagaacaggatttgtttataattggtttcagctgttggattgagataatttttttgtgaaatataatacagGCTGGGTTTGCTGGGATTGGAGTTGGTGCTGCTTACTATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG
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gtttggaattcttatactattatctt--gtactgcagtctcaatccttatttccatgtttcttgattgagaagatttctgacagttatcgtttaaccatgttttagGCTGGATTTACTGGAATTGGAGTTGGTGCTGCCTATGCTGGCTTAAAGCCCGTTGTAGAATTTATGACGTTTAACTTCTCTATGCAG
upper sequence: GLYMA14G02380.2 (Glycine max), 3'ss of exon 5
lower sequence: Vv17s0000g00690.t01 (Vitis vinifera), 3'ss of exon 5
gcttctcactttaaaatttgtaggaaaataagaacaggatttgtttataattggtttcagctgttggattgagataat----ttttttgtgaaatataatacagGCTGGGTTTGCTGGGATTGGAGTTGGTGCTGCTTACTATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG
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---ttttactttggc-ttagtaagtatatgcagcaaggtgtttttcttaacttgtcattgcgggaatattctcagcatctgatttctggggatatgtattgtagGCGGGCTTTGCCGGAATTGGAGTTGGTGCTGCTTACCATGGTCTTAAGCCTATCATAGAATTTATGACATTTAATTTCTCCTTGCAGMapped 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|209727470|gb|BW663731.1|BW663731EST: TGCTCGAAAAGTTTGGCCCCGAGAGGGTTCTTGATACTCCAATCACTGAG GCTGGGTTTGCTGGGATTGGAGTTGGTGCTGCTTACTATGGTCTAAGGCCT
genomic: TGCTCGAAAAGTTTGGCCCCGAGAGGGTTCTTGATACTCCAATCACTGAGgtcatttttc ... tataatacagGCTGGGTTTGCTGGGATTGGAGTTGGTGCTGCTTACTATGGTCTAAGGCCT
EST:
gi|193536132|gb|FK488280.1|FK488280EST: TGCTCGAAAAGTTTGGCCCCGAGAGGGTTCTTGATACTCCAATCACTGAG GCTGGGTTTGCTGGGATTGGAGTTGGTGCTGCTTACTATGGTCTAAGGCCT
genomic: TGCTCGAAAAGTTTGGCCCCGAGAGGGTTCTTGATACTCCAATCACTGAGgtcatttttc ... tataatacagGCTGGGTTTGCTGGGATTGGAGTTGGTGCTGCTTACTATGGTCTAAGGCCT
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tataattggtttcagctgttggattgagataatttttttgtgaaatataatacagGCTGGGTTTGCTGGGATTGGAGTTGGTGCTGCTTACTATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG
attgagataatttttt 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 |
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---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcttctcactttaaaatttgtaggaaaataagaacaggatttgtttataattggtttcagctgttggattgagataatttttttgtgaaatataatacagGCTGGGTTTGCTGGGATTGGAGTTGGTGCTGCTTACTATGGTCTAAGGCCTGTTGTGGAGTTTATGACTTTTAACTTCTCCATGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG