Sequence
atgc intronic sequence ATGC exonic sequence...gcctcatactatttcattgtgttagaaatatagggttgtgggccagaactacttttcaatgtgcataataatggttgttgatatgaacatctatgtgcagGTTGGATATGCTATGCTGAAAAGCAACTTGGATCCTTTGTTCTACCTTATATTTCATCAGTAAAGAGTCCACAGCAAACAGTTGGAGCTATCATAAAGAA
Basic information
species | Glycine max |
transcript | GLYMA07G39690.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA07G39690.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G456690_T01 (Zea mays), 3'ss of exon 4
----------------------------------------------------gcctcatactatttcattgtgttagaaatatagggttg-tgggccagaactacttttca---atgtgcataataa---------tggtt-gttgatatga------aca------tctatgtgcagGTTGGATATGCTATGCTGAAAAGCAACTTGGATCCTTTGTTCTACCTTATATTTCATCAGTAAAGAGTCCACAGCAAACAGTTGGAGCTATCATAAAGAA
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gtaagatttttgctgggaacatgacatgtggatacttgcataacgcagtttgggttttaaaaattctgtaaccttgcatgcataatactaatggtttacaactaccttttatgcatttgctttagaaacaagtgcatgatttgttcacaaaatgtgtcacagcctcttccacttgcagGTTGGATATGCTATGCTGAAAAGACTCTTGGTTCATACATCCTACCTTACATCTCATCTGTGAAGAGCCCGCAACAGGCAATTGGTGCAGCCATTAAGCA
upper sequence: GLYMA07G39690.1 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G171998_T01 (Zea mays), 3'ss of exon 4
---gcctcatac-tatttcattgtgttagaa-atatagggttgtgggccagaactacttttcaatgtgcataataatggttgttgatatgaacatctatgtgcagGTTGGATATGCTATGCTGAAAAGCAACTTGGATCCTTTGTTCTACCTTATATTTCATCAGTAAAGAGTCCACAGCAAACAGTTGGAGCTATCATAAAGAA
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gtaaccttgcatgtatatcactacatttttatgcatttgctttcgaaacaagtacacgatt---tgttcacaa-aatatgtgtc-acagcctcttccacttgcagGTTGGATATGCTATGCTGAAAAGACTCTTGGTTCATACATACTACCTTACATATCATCTGTAAAGAGCCCACAACAGGCAATTGGTGCAGCCATTAAGCA
upper sequence: GLYMA07G39690.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv00s0508g00020.t01 (Vitis vinifera), 3'ss of exon 4
gcctcatactatttcattgtgttagaaatatagggttgtgggccagaac---tacttttcaatgtgcataataatggttgttgatatgaacatctatg--tgcagGTTGGATATGCTATGCTGAAAAGCAACTTGGATCCTTTGTTCTACCTTATATTTCATCAGTAAAGAGTCCACAGCAAACAGTTGGAGCTATCATAAAGAA
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-gatgttgtagttttatt-tcttagaaagacaatagtttaggtcccagtggattgttgtcattatgtgttatatc--ttattggaac-atcttctataaatgcagGTTGGATATGCTATGCTGAAAAGACACTTGGATCCTATATTCTGCCTTATATTTCATCAGTGAAGAGCCCCCAGCAAACTATTGGAGTTACAATTAAGAAMapped 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|193365587|gb|FK331898.1|FK331898EST: AGATGAGAGGAGTAAATCAAGTCTACCTATGATTGCATCAGCTTGCCCAG GTTGGATATGCTATGCTGAAAAGCAACTTGGATCCTTTGTTCTACCTTATA
genomic: TGATGAGAGGAGTAAATCAAGCCTACCTATGATTGCATCAGCTTGCCCAGgtatagaagt ... ctatgtgcagGTTGGATATGCTATGCTGAAAAGCAACTTGGATCCTTTGTTCTACCTTATA
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaactacttttcaatgtgcataataatggttgttgatatgaacatctatgtgcagGTTGGATATGCTATGCTGAAAAGCAACTTGGATCCTTTGTTCTACCTTATATTTCATCAGTAAAGAGTCCACAGCAAACAGTTGGAGCTATCATAAAGAA
tgttgat putative branch site (score: 4)
ataataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gcctcatactatttcattgtgttagaaatatagggttgtgggccagaactacttttcaatgtgcataataatggttgttgatatgaacatctatgtgcagGTTGGATATGCTATGCTGAAAAGCAACTTGGATCCTTTGTTCTACCTTATATTTCATCAGTAAAGAGTCCACAGCAAACAGTTGGAGCTATCATAAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
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- ctcatac
- - - - - - - - - - - - - - - - - -ttgtggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgcataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gttgttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tatgaac